Flavonoid & Folate – MyNutRiceBase

Search for putative flavonoid and folate SNPs based on SNPs ID, chromosome, alleles and pathways

RAPDB ID:

Gene descriptions:

SNP effects:

Pathways:

SNP ID	RAPDB ID	Gene descriptions	SNP effects	Pathways	Ref allele	Allele	Chr	Pos	Bali	PH9	MRM16	MRQ100	MR297	MRQ76
chr01_23457564	Os01g0597800	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	synonymous_variant	flavonoid	C	A	chr01	23,457,564	CC	CA	CC	CC	CC	CC
chr01_23457751	Os01g0597800	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	3_prime_UTR_variant	flavonoid	C	G	chr01	23,457,751	CC	CG	CC	CC	CC	CC
chr01_23457918	Os01g0597800	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	3_prime_UTR_variant	flavonoid	C	T	chr01	23,457,918	CC	CT	CC	CC	CC	CC
chr01_23464804	Os01g0598000	Similar to UDP-glycosyltransferase UGT703A5.	synonymous_variant	flavonoid	C	T	chr01	23,464,804	CC	CT	CC	CC	CC	CC
chr01_23465058	Os01g0598000	Similar to UDP-glycosyltransferase UGT703A5.	missense_variant	flavonoid	A	T	chr01	23,465,058	AA	AT	AA	AA	AA	AA
chr01_25383073	Os01g0633500	Similar to Dihydroflavonol reductase.	5_prime_UTR_variant	flavonoid	G	A	chr01	25,383,073	GG	GG	GG	GG	GG	GA
chr01_25383639	Os01g0633500	Similar to Dihydroflavonol reductase.	intron_variant	flavonoid	C	G	chr01	25,383,639	CG	CC	CC	CC	CC	CC
chr01_25384314	Os01g0633500	Similar to Dihydroflavonol reductase.	missense_variant	flavonoid	C	A	chr01	25,384,314	CC	CC	CC	CC	CC	CA
chr01_25384379	Os01g0633500	Similar to Dihydroflavonol reductase.	synonymous_variant	flavonoid	C	T	chr01	25,384,379	CT	CC	CC	CC	CC	CC
chr01_30667696	Os01g0735300	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	synonymous_variant	flavonoid	G	A	chr01	30,667,696	GG	GG	GG	GG	GG	GA
chr01_35637429	Os01g0832600	Similar to Leucoanthocyanidin dioxygenase-like protein.	intron_variant	flavonoid	C	T	chr01	35,637,429	CT	CC	CC	CC	CC	CC
chr01_35637432	Os01g0832600	Similar to Leucoanthocyanidin dioxygenase-like protein.	intron_variant	flavonoid	G	T	chr01	35,637,432	GG	GG	GG	GG	GG	GT
chr01_35637783	Os01g0832600	Similar to Leucoanthocyanidin dioxygenase-like protein.	intron_variant	flavonoid	C	A	chr01	35,637,783	CC	CC	CC	CC	CC	CA
chr01_3918714	Os01g0176050	Hypothetical protein.	intron_variant	flavonoid	G	A	chr01	3,918,714	GG	GG	GG	GG	GG	GA
chr01_3918714	Os01g0176000	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	intron_variant	flavonoid	G	A	chr01	3,918,714	GG	GG	GG	GG	GG	GA
chr01_3918989	Os01g0176000	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	intron_variant	flavonoid	T	C	chr01	3,918,989	TT	TT	TC	TT	TT	TT
chr01_3918989	Os01g0176050	Hypothetical protein.	intron_variant	flavonoid	T	C	chr01	3,918,989	TT	TT	TC	TT	TT	TT
chr01_3919804	Os01g0176050	Hypothetical protein.	5_prime_UTR_variant	flavonoid	A	G	chr01	3,919,804	AA	AA	AA	AA	AA	AG
chr01_3919804	Os01g0176000	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	synonymous_variant	flavonoid	A	G	chr01	3,919,804	AA	AA	AA	AA	AA	AG
chr01_3920003	Os01g0176000	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	missense_variant	flavonoid	T	C	chr01	3,920,003	TT	TT	TC	TT	TT	TT
chr01_3920003	Os01g0176050	Hypothetical protein.	5_prime_UTR_variant	flavonoid	T	C	chr01	3,920,003	TT	TT	TC	TT	TT	TT
chr01_3920111	Os01g0176050	Hypothetical protein.	5_prime_UTR_variant	flavonoid	A	G	chr01	3,920,111	AA	AA	AA	AA	AA	AG
chr01_3920111	Os01g0176000	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	missense_variant	flavonoid	A	G	chr01	3,920,111	AA	AA	AA	AA	AA	AG
chr01_39253383	Os01g0901500	Similar to 4-coumarate--CoA ligase-like 5.	synonymous_variant	flavonoid	G	A	chr01	39,253,383	GG	GG	GG	GA	GG	GG
chr01_39256032	Os01g0901550	Hypothetical gene.	intron_variant	flavonoid	G	C	chr01	39,256,032	GC	GG	GG	GG	GG	GG
chr01_39256032	Os01g0901500	Similar to 4-coumarate--CoA ligase-like 5.	intron_variant	flavonoid	G	C	chr01	39,256,032	GC	GG	GG	GG	GG	GG
chr01_39258240	Os01g0901600	Similar to 4-coumarate--CoA ligase-like 6.	synonymous_variant	flavonoid	C	T	chr01	39,258,240	CT	CC	CC	CC	CC	CC
chr01_39258803	Os01g0901600	Similar to 4-coumarate--CoA ligase-like 6.	missense_variant	flavonoid	C	T	chr01	39,258,803	CT	CC	CC	CC	CC	CC
chr01_39260539	Os01g0901650	Hypothetical gene.	intron_variant	flavonoid	C	A	chr01	39,260,539	CA	CC	CC	CC	CC	CC
chr01_39260539	Os01g0901600	Similar to 4-coumarate--CoA ligase-like 6.	intron_variant	flavonoid	C	A	chr01	39,260,539	CA	CC	CC	CC	CC	CC
chr01_7667525	Os01g0238500	Similar to Branched-chain-amino-acid aminotransferase-like protein 3, chloroplast precursor.	intron_variant	folate	T	G	chr01	7,667,525	TG	TG	TG	TG	TG	TG
chr01_7667976	Os01g0238500	Similar to Branched-chain-amino-acid aminotransferase-like protein 3, chloroplast precursor.	3_prime_UTR_variant	folate	T	C	chr01	7,667,976	TC	TC	TC	TC	TC	TC
chr02_12767696	Os02g0320300	Similar to Chalcone isomerase 3.	intron_variant	flavonoid	C	G	chr02	12,767,696	CC	CG	CC	CC	CC	CC
chr02_16678419	Os02g0483500	Transferase family protein.	3_prime_UTR_variant	flavonoid	A	T	chr02	16,678,419	AA	AA	AA	AA	AA	AT
chr02_16678835	Os02g0483500	Transferase family protein.	missense_variant	flavonoid	A	C	chr02	16,678,835	AA	AA	AA	AA	AA	AC
chr02_24988914	Os02g0626400	Similar to Phenylalanine ammonia-lyase.;Phenylalanine ammonia-lyase (EC 4.3.1.5).	synonymous_variant	flavonoid	G	A	chr02	24,988,914	GG	GG	GG	GG	GG	GA
chr02_25008770	Os02g0627100	Similar to Phenylalanine ammonia-lyase (EC 4.3.1.5).	synonymous_variant	flavonoid	C	T	chr02	25,008,770	CC	CC	CC	CC	CC	CT
chr02_27907649	Os02g0682500	Similar to TRANSPARENT TESTA GLABRA 1 protein (TTG1 protein).	intron_variant	flavonoid	T	C	chr02	27,907,649	TT	TT	TC	TT	TT	TT
chr02_28678322	Os02g0697400	4-coumarate:coenzyme A ligase, Flavonoid biosynthesis	intron_variant	flavonoid	G	A	chr02	28,678,322	GG	GG	GA	GG	GG	GG
chr02_32311178	Os02g0767300	Similar to Flavonol synthase/flavanone 3-hydroxylase (EC 1.14.11.23) (EC 1.14.11.9) (FLS) (CitFLS).	intron_variant	flavonoid	C	A	chr02	32,311,178	CC	CC	CC	CC	CA	CC
chr02_32958017	Os02g0778500	Chalcone isomerase domain containing protein.	intron_variant	flavonoid	G	A	chr02	32,958,017	GA	GG	GG	GG	GG	GG
chr02_32958590	Os02g0778500	Chalcone isomerase domain containing protein.	missense_variant	flavonoid	G	A	chr02	32,958,590	GA	GG	GG	GG	GG	GG
chr02_9950921	Os02g0273100	Aminotransferase, class IV family protein.	3_prime_UTR_variant	folate	C	T	chr02	9,950,921	CC	CT	CC	CC	CC	CT
chr02_9951113	Os02g0273100	Aminotransferase, class IV family protein.	3_prime_UTR_variant	folate	G	A	chr02	9,951,113	GG	GG	GG	GG	GG	GA
chr02_9951704	Os02g0273100	Aminotransferase, class IV family protein.	missense_variant	folate	C	T	chr02	9,951,704	CT	CT	CC	CT	CT	CT
chr02_9952002	Os02g0273100	Aminotransferase, class IV family protein.	missense_variant	folate	T	A	chr02	9,952,002	TT	TT	TT	TA	TA	TT
chr02_9952339	Os02g0273100	Aminotransferase, class IV family protein.	synonymous_variant	folate	T	A	chr02	9,952,339	TT	TT	TT	TA	TA	TT
chr02_9952583	Os02g0273100	Aminotransferase, class IV family protein.	intron_variant	folate	C	A	chr02	9,952,583	CC	CA	CC	CC	CC	CA
chr02_9952945	Os02g0273100	Aminotransferase, class IV family protein.	intron_variant	folate	G	A	chr02	9,952,945	GG	GG	GG	GA	GA	GG
chr02_9953220	Os02g0273100	Aminotransferase, class IV family protein.	intron_variant	folate	T	C	chr02	9,953,220	TT	TT	TC	TC	TC	TT
chr02_9953370	Os02g0273100	Aminotransferase, class IV family protein.	intron_variant	folate	A	T	chr02	9,953,370	AA	AT	AA	AA	AA	AT
chr02_9953807	Os02g0273100	Aminotransferase, class IV family protein.	intron_variant	folate	G	C	chr02	9,953,807	GG	GC	GG	GG	GG	GC
chr02_9954371	Os02g0273100	Aminotransferase, class IV family protein.	intron_variant	folate	C	T	chr02	9,954,371	CC	CT	CC	CC	CC	CT
chr02_9954675	Os02g0273100	Aminotransferase, class IV family protein.	intron_variant	folate	A	G	chr02	9,954,675	AA	AA	AA	AG	AG	AA
chr03_10042510	Os03g0289800	Similar to Leucoanthocyanidin dioxygenase-like protein.	intron_variant	flavonoid	T	A	chr03	10,042,510	TT	TT	TT	TA	TT	TT
chr03_10042774	Os03g0289800	Similar to Leucoanthocyanidin dioxygenase-like protein.	intron_variant	flavonoid	C	G	chr03	10,042,774	CC	CC	CC	CG	CC	CC
chr03_34394898	Os03g0819600	Chalcone isomerase (EC 5.5.1.6).	intron_variant	flavonoid	T	C	chr03	34,394,898	TC	TT	TT	TT	TT	TT
chr03_34395506	Os03g0819600	Chalcone isomerase (EC 5.5.1.6).	missense_variant	flavonoid	C	T	chr03	34,395,506	CT	CC	CC	CC	CC	CC
chr03_4442342	Os03g0184550	Similar to Dihydroflavonol-4-reductase.	intron_variant	flavonoid	C	T	chr03	4,442,342	CC	CC	CC	CC	CC	CT
chr03_4442580	Os03g0184550	Similar to Dihydroflavonol-4-reductase.	synonymous_variant	flavonoid	C	A	chr03	4,442,580	CC	CC	CC	CC	CC	CA
chr03_4443004	Os03g0184550	Similar to Dihydroflavonol-4-reductase.	intron_variant	flavonoid	T	A	chr03	4,443,004	TT	TT	TT	TT	TT	TA
chr03_4443539	Os03g0184550	Similar to Dihydroflavonol-4-reductase.	intron_variant	flavonoid	G	T	chr03	4,443,539	GG	GG	GG	GG	GG	GT
chr03_4445205	Os03g0184600	Similar to Dihydroflavonol-4-reductase.	intron_variant	flavonoid	A	G	chr03	4,445,205	AA	AA	AA	AA	AA	AG
chr03_4445504	Os03g0184600	Similar to Dihydroflavonol-4-reductase.	3_prime_UTR_variant	flavonoid	G	A	chr03	4,445,504	GG	GG	GG	GG	GG	GA
chr03_4446256	Os03g0184600	Similar to Dihydroflavonol-4-reductase.	3_prime_UTR_variant	flavonoid	A	G	chr03	4,446,256	AA	AA	AA	AA	AA	AG
chr03_641054	Os03g0111100	Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	intron_variant	folate	A	G	chr03	641,054	AG	AG	AG	AG	AG	AG
chr03_641444	Os03g0111100	Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	intron_variant	folate	A	G	chr03	641,444	AG	AG	AG	AG	AG	AG
chr03_641671	Os03g0111100	Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	missense_variant	folate	C	G	chr03	641,671	CG	CG	CG	CG	CG	CG
chr03_642147	Os03g0111100	Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	synonymous_variant	folate	T	C	chr03	642,147	TC	TC	TC	TC	TC	TC
chr03_643681	Os03g0111100	Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	intron_variant	folate	A	G	chr03	643,681	AG	AG	AG	AG	AG	AG
chr03_644143	Os03g0111100	Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	intron_variant	folate	T	C	chr03	644,143	TC	TC	TC	TC	TC	TC
chr03_644561	Os03g0111100	Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	intron_variant	folate	T	G	chr03	644,561	TG	TG	TG	TG	TG	TG
chr03_644732	Os03g0111100	Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	intron_variant	folate	T	C	chr03	644,732	TC	TC	TC	TC	TC	TC
chr03_645267	Os03g0111100	Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	intron_variant	folate	A	G	chr03	645,267	AG	AG	AG	AG	AG	AG
chr04_261584	Os04g0103900	Similar to Chalcone synthase.	intron_variant	flavonoid	C	T	chr04	261,584	CC	CT	CC	CC	CC	CC
chr04_262753	Os04g0103900	Similar to Chalcone synthase.	synonymous_variant	flavonoid	T	C	chr04	262,753	TT	TC	TT	TT	TT	TT
chr04_27917649	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	C	T	chr04	27,917,649	CC	CC	CC	CT	CC	CC
chr04_27919173	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	C	T	chr04	27,919,173	CC	CC	CT	CC	CC	CC
chr04_27919836	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	C	T	chr04	27,919,836	CC	CC	CT	CC	CC	CC
chr04_27921263	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	C	T	chr04	27,921,263	CT	CC	CC	CC	CC	CC
chr04_27921779	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	C	G	chr04	27,921,779	CC	CC	CC	CC	CC	CG
chr04_27921842	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	C	T	chr04	27,921,842	CC	CC	CT	CC	CC	CC
chr04_27922041	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	G	A	chr04	27,922,041	GG	GG	GA	GG	GG	GG
chr04_27923168	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	C	T	chr04	27,923,168	CT	CC	CC	CC	CC	CC
chr04_27924251	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	C	T	chr04	27,924,251	CT	CC	CC	CC	CC	CC
chr04_27929429	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	G	A	chr04	27,929,429	GG	GG	GA	GG	GG	GG
chr04_27930982	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	G	A	chr04	27,930,982	GG	GG	GG	GA	GG	GG
chr04_27932975	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	G	T	chr04	27,932,975	GG	GG	GG	GT	GG	GG
chr04_27934034	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	G	A	chr04	27,934,034	GG	GG	GA	GG	GG	GG
chr04_27935883	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	G	T	chr04	27,935,883	GG	GG	GT	GG	GG	GG
chr04_27938398	Os04g0557500	Similar to Transcriptional activator Ra homolog (Fragment).	intron_variant	flavonoid	C	T	chr04	27,938,398	CC	CC	CC	CC	CT	CC
chr04_27950401	Os04g0557800	Similar to R-type basic helix-loop-helix protein.	intron_variant	flavonoid	C	T	chr04	27,950,401	CC	CC	CC	CT	CC	CC
chr04_27953839	Os04g0557800	Similar to R-type basic helix-loop-helix protein.	intron_variant	flavonoid	G	T	chr04	27,953,839	GG	GG	GG	GG	GT	GT
chr04_32087371	Os04g0630800	Similar to Anthocyanidin reductase.	intron_variant	flavonoid	A	G	chr04	32,087,371	AA	AA	AG	AA	AA	AA
chr04_32087780	Os04g0630800	Similar to Anthocyanidin reductase.	missense_variant	flavonoid	G	A	chr04	32,087,780	GG	GG	GA	GG	GG	GG
chr04_32087936	Os04g0630800	Similar to Anthocyanidin reductase.	intron_variant	flavonoid	C	G	chr04	32,087,936	CC	CG	CC	CC	CC	CC
chr04_33814230	Os04g0662700	Similar to GTP cyclohydrolase 1 isoform TaA.	3_prime_UTR_variant	folate	G	A	chr04	33,814,230	GA	GA	GA	GA	GA	GA
chr04_33814548	Os04g0662700	Similar to GTP cyclohydrolase 1 isoform TaA.	3_prime_UTR_variant	folate	G	A	chr04	33,814,548	GA	GA	GA	GA	GA	GA
chr04_33814904	Os04g0662700	Similar to GTP cyclohydrolase 1 isoform TaA.	3_prime_UTR_variant	folate	G	A	chr04	33,814,904	GA	GA	GA	GA	GA	GA
chr04_33814904	Os04g0662700	Similar to GTP cyclohydrolase 1 isoform TaA.	synonymous_variant	folate	G	A	chr04	33,814,904	GA	GA	GA	GA	GA	GA
chr04_33815486	Os04g0662700	Similar to GTP cyclohydrolase 1 isoform TaA.	synonymous_variant	folate	A	G	chr04	33,815,486	AG	AG	AG	AG	AG	AG
chr04_33815486	Os04g0662700	Similar to GTP cyclohydrolase 1 isoform TaA.	3_prime_UTR_variant	folate	A	G	chr04	33,815,486	AG	AG	AG	AG	AG	AG
chr04_33815678	Os04g0662700	Similar to GTP cyclohydrolase 1 isoform TaA.	3_prime_UTR_variant	folate	T	C	chr04	33,815,678	TC	TC	TC	TC	TC	TC
chr04_33815678	Os04g0662700	Similar to GTP cyclohydrolase 1 isoform TaA.	synonymous_variant	folate	T	C	chr04	33,815,678	TC	TC	TC	TC	TC	TC
chr04_33816380	Os04g0662700	Similar to GTP cyclohydrolase 1 isoform TaA.	intron_variant	folate	A	G	chr04	33,816,380	AG	AG	AG	AG	AG	AG
chr04_33817339	Os04g0662700	Similar to GTP cyclohydrolase 1 isoform TaA.	intron_variant	folate	A	G	chr04	33,817,339	AG	AG	AG	AG	AG	AG
chr04_33818710	Os04g0662700	Similar to GTP cyclohydrolase 1 isoform TaA.	5_prime_UTR_variant	folate	T	A	chr04	33,818,710	TA	TA	TA	TA	TA	TA
chr04_7154268	Os04g0206500	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	intron_variant	flavonoid	C	T	chr04	7,154,268	CC	CC	CC	CT	CC	CC
chr04_7154553	Os04g0206500	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	intron_variant	flavonoid	G	A	chr04	7,154,553	GG	GG	GG	GA	GG	GG
chr04_7155179	Os04g0206500	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	synonymous_variant	flavonoid	G	A	chr04	7,155,179	GG	GG	GA	GG	GG	GG
chr04_7155887	Os04g0206500	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	synonymous_variant	flavonoid	G	T	chr04	7,155,887	GG	GG	GG	GT	GG	GG
chr05_14902924	Os05g0320700	Similar to Cytochrome P450.	intron_variant	flavonoid	T	A	chr05	14,902,924	TT	TT	TT	TT	TT	TA
chr05_14903362	Os05g0320700	Similar to Cytochrome P450.	intron_variant	flavonoid	A	G	chr05	14,903,362	AA	AG	AA	AA	AA	AA
chr05_14903366	Os05g0320700	Similar to Cytochrome P450.	intron_variant	flavonoid	C	T	chr05	14,903,366	CC	CC	CC	CC	CT	CC
chr05_1563129	Os05g0127500	Similar to Leucoanthocyanidin dioxygenase-like protein.	intron_variant	flavonoid	A	G	chr05	1,563,129	AA	AA	AA	AA	AG	AA
chr05_24607783	Os05g0499800	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	3_prime_UTR_variant	flavonoid	T	C	chr05	24,607,783	TT	TT	TT	TC	TT	TT
chr05_24611835	Os05g0500101	Hypothetical gene.	3_prime_UTR_variant	flavonoid	C	T	chr05	24,611,835	CC	CC	CT	CC	CC	CC
chr05_24611835	Os05g0500000	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	synonymous_variant	flavonoid	C	T	chr05	24,611,835	CC	CC	CT	CC	CC	CC
chr05_25654123	Os05g0517500	Similar to Gamma-glutamyl hydrolase precursor (EC 3.4.19.9) (Gamma-Glu-X carboxypeptidase) (Conjugase) (GH).;Similar to Gamma-glutamyl hydrolase.	intron_variant	folate	C	T	chr05	25,654,123	CT	CT	CT	CT	CT	CT
chr05_25654892	Os05g0517500	Similar to Gamma-glutamyl hydrolase precursor (EC 3.4.19.9) (Gamma-Glu-X carboxypeptidase) (Conjugase) (GH).;Similar to Gamma-glutamyl hydrolase.	intron_variant	folate	C	G	chr05	25,654,892	CG	CG	CG	CG	CG	CG
chr05_25655093	Os05g0517500	Similar to Gamma-glutamyl hydrolase precursor (EC 3.4.19.9) (Gamma-Glu-X carboxypeptidase) (Conjugase) (GH).;Similar to Gamma-glutamyl hydrolase.	intron_variant	folate	T	C	chr05	25,655,093	TC	TC	TC	TC	TC	TC
chr05_25655681	Os05g0517500	Similar to Gamma-glutamyl hydrolase precursor (EC 3.4.19.9) (Gamma-Glu-X carboxypeptidase) (Conjugase) (GH).;Similar to Gamma-glutamyl hydrolase.	intron_variant	folate	C	T	chr05	25,655,681	CT	CT	CT	CT	CT	CT
chr05_25656010	Os05g0517500	Similar to Gamma-glutamyl hydrolase precursor (EC 3.4.19.9) (Gamma-Glu-X carboxypeptidase) (Conjugase) (GH).;Similar to Gamma-glutamyl hydrolase.	intron_variant	folate	C	T	chr05	25,656,010	CT	CT	CT	CT	CT	CT
chr05_25656354	Os05g0517500	Similar to Gamma-glutamyl hydrolase precursor (EC 3.4.19.9) (Gamma-Glu-X carboxypeptidase) (Conjugase) (GH).;Similar to Gamma-glutamyl hydrolase.	intron_variant	folate	C	T	chr05	25,656,354	CT	CT	CT	CT	CT	CT
chr05_25656957	Os05g0517500	Similar to Gamma-glutamyl hydrolase precursor (EC 3.4.19.9) (Gamma-Glu-X carboxypeptidase) (Conjugase) (GH).;Similar to Gamma-glutamyl hydrolase.	intron_variant	folate	T	C	chr05	25,656,957	TC	TC	TC	TC	TC	TC
chr05_25657433	Os05g0517500	Similar to Gamma-glutamyl hydrolase precursor (EC 3.4.19.9) (Gamma-Glu-X carboxypeptidase) (Conjugase) (GH).;Similar to Gamma-glutamyl hydrolase.	synonymous_variant	folate	G	C	chr05	25,657,433	GC	GC	GC	GC	GC	GC
chr05_26199175	Os05g0527000	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	synonymous_variant	flavonoid	G	T	chr05	26,199,175	GT	GG	GG	GG	GG	GG
chr05_7153717	Os05g0215300	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	synonymous_variant	flavonoid	C	T	chr05	7,153,717	CC	CC	CT	CC	CC	CC
chr05_8785994	Os05g0244700	Aminotransferase, class IV family protein.	intron_variant	folate	G	T	chr05	8,785,994	GT	GT	GG	GG	GG	GT
chr05_8786022	Os05g0244700	Aminotransferase, class IV family protein.	intron_variant	folate	C	T	chr05	8,786,022	CC	CC	CC	CT	CC	CC
chr05_8786295	Os05g0244700	Aminotransferase, class IV family protein.	missense_variant	folate	G	C	chr05	8,786,295	GC	GC	GC	GC	GG	GC
chr05_8786635	Os05g0244700	Aminotransferase, class IV family protein.	synonymous_variant	folate	T	G	chr05	8,786,635	TT	TT	TG	TT	TT	TT
chr05_8786968	Os05g0244700	Aminotransferase, class IV family protein.	intron_variant	folate	C	T	chr05	8,786,968	CC	CC	CC	CT	CC	CC
chr05_8787101	Os05g0244700	Aminotransferase, class IV family protein.	synonymous_variant	folate	G	T	chr05	8,787,101	GG	GG	GG	GG	GG	GT
chr05_8787142	Os05g0244700	Aminotransferase, class IV family protein.	missense_variant	folate	G	A	chr05	8,787,142	GG	GA	GG	GG	GG	GG
chr05_8787309	Os05g0244700	Aminotransferase, class IV family protein.	missense_variant	folate	T	A	chr05	8,787,309	TA	TT	TA	TT	TT	TT
chr05_8787487	Os05g0244700	Aminotransferase, class IV family protein.	5_prime_UTR_variant	folate	T	C	chr05	8,787,487	TC	TC	TC	TC	TT	TC
chr06_10479460	Os06g0288300	C-glucosyltransferase, Flavone-C-glycoside synthesis	synonymous_variant	flavonoid	C	G	chr06	10,479,460	CG	CC	CC	CC	CC	CC
chr06_10479849	Os06g0288300	C-glucosyltransferase, Flavone-C-glycoside synthesis	missense_variant	flavonoid	A	G	chr06	10,479,849	AG	AA	AA	AA	AA	AA
chr06_10480582	Os06g0288300	C-glucosyltransferase, Flavone-C-glycoside synthesis	synonymous_variant	flavonoid	A	G	chr06	10,480,582	AG	AA	AA	AA	AA	AA
chr06_2816508	Os06g0154600	Similar to Dihydroneopterin aldolase.	missense_variant	folate	C	A	chr06	2,816,508	CA	CA	CA	CA	CA	CC
chr06_2817049	Os06g0154600	Similar to Dihydroneopterin aldolase.	synonymous_variant	folate	C	T	chr06	2,817,049	CT	CT	CT	CT	CT	CC
chr06_29417486	Os06g0699700	Similar to Aminodeoxychorismate synthase/glutamine amidotransferase.	missense_variant	folate	C	T	chr06	29,417,486	CC	CC	CC	CT	CC	CC
chr06_29417607	Os06g0699700	Similar to Aminodeoxychorismate synthase/glutamine amidotransferase.	synonymous_variant	folate	C	T	chr06	29,417,607	CT	CT	CT	CC	CT	CT
chr06_29417986	Os06g0699700	Similar to Aminodeoxychorismate synthase/glutamine amidotransferase.	synonymous_variant	folate	T	C	chr06	29,417,986	TT	TT	TT	TT	TC	TT
chr06_29418256	Os06g0699700	Similar to Aminodeoxychorismate synthase/glutamine amidotransferase.	synonymous_variant	folate	G	A	chr06	29,418,256	GA	GA	GA	GA	GA	GA
chr07_10018833	Os07g0271500	Similar to Chalcone synthase.	missense_variant	flavonoid	G	A	chr07	10,018,833	GG	GG	GG	GA	GG	GG
chr07_10019311	Os07g0271500	Similar to Chalcone synthase.	intron_variant	flavonoid	T	C	chr07	10,019,311	TT	TT	TT	TC	TT	TT
chr07_10637856	Os07g0280200	AMP-dependent synthetase and ligase domain containing protein.	intron_variant	flavonoid	T	G	chr07	10,637,856	TT	TT	TT	TG	TT	TT
chr07_10637856	Os07g0280600	Hypothetical protein.	intron_variant	flavonoid	T	G	chr07	10,637,856	TT	TT	TT	TG	TT	TT
chr07_18874068	Os07g0501100	Similar to Chalcone synthase 2 (EC 2.3.1.74) (Naringenin-chalcone synthase 2).	3_prime_UTR_variant	flavonoid	G	A	chr07	18,874,068	GG	GG	GA	GG	GG	GG
chr07_18874382	Os07g0501133	Hypothetical gene.	missense_variant	flavonoid	T	G	chr07	18,874,382	TT	TT	TG	TT	TT	TT
chr07_18874382	Os07g0501100	Similar to Chalcone synthase 2 (EC 2.3.1.74) (Naringenin-chalcone synthase 2).	synonymous_variant	flavonoid	T	G	chr07	18,874,382	TT	TT	TG	TT	TT	TT
chr07_18874697	Os07g0501133	Hypothetical gene.	missense_variant	flavonoid	C	G	chr07	18,874,697	CG	CC	CC	CC	CC	CC
chr07_18874697	Os07g0501100	Similar to Chalcone synthase 2 (EC 2.3.1.74) (Naringenin-chalcone synthase 2).	synonymous_variant	flavonoid	C	G	chr07	18,874,697	CG	CC	CC	CC	CC	CC
chr07_18875570	Os07g0501100	Similar to Chalcone synthase 2 (EC 2.3.1.74) (Naringenin-chalcone synthase 2).	synonymous_variant	flavonoid	C	G	chr07	18,875,570	CC	CC	CG	CC	CC	CC
chr07_20420936	Os07g0525500	Similar to chalcone synthase 8.	synonymous_variant	flavonoid	G	C	chr07	20,420,936	GG	GG	GC	GG	GG	GG
chr07_20420936	Os07g0525450	Hypothetical gene.	missense_variant	flavonoid	G	C	chr07	20,420,936	GG	GG	GC	GG	GG	GG
chr07_20421061	Os07g0525450	Hypothetical gene.	synonymous_variant	flavonoid	C	T	chr07	20,421,061	CC	CC	CC	CT	CC	CC
chr07_20421061	Os07g0525500	Similar to chalcone synthase 8.	missense_variant	flavonoid	C	T	chr07	20,421,061	CC	CC	CC	CT	CC	CC
chr07_25524746	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	intron_variant	folate	A	G	chr07	25,524,746	AG	AG	AG	AG	AG	AG
chr07_25525144	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	synonymous_variant	folate	G	C	chr07	25,525,144	GC	GC	GC	GC	GC	GC
chr07_25526281	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	synonymous_variant	folate	G	T	chr07	25,526,281	GG	GG	GT	GG	GG	GG
chr07_25526474	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	missense_variant	folate	A	G	chr07	25,526,474	AG	AG	AG	AA	AG	AG
chr07_25526902	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	3_prime_UTR_variant	folate	C	T	chr07	25,526,902	CT	CT	CT	CT	CT	CT
chr07_25527444	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	3_prime_UTR_variant	folate	T	C	chr07	25,527,444	TC	TC	TC	TT	TC	TC
chr07_25527596	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	intron_variant	folate	T	A	chr07	25,527,596	TA	TA	TA	TA	TA	TA
chr07_25528376	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	intron_variant	folate	A	G	chr07	25,528,376	AG	AG	AG	AG	AG	AG
chr07_25528623	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	intron_variant	folate	G	A	chr07	25,528,623	GA	GA	GA	GA	GA	GA
chr07_25529004	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	intron_variant	folate	G	T	chr07	25,529,004	GT	GT	GT	GG	GT	GT
chr07_25529116	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	intron_variant	folate	A	T	chr07	25,529,116	AA	AA	AA	AT	AA	AA
chr07_25529632	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	intron_variant	folate	C	G	chr07	25,529,632	CC	CC	CC	CG	CC	CC
chr07_25529664	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	intron_variant	folate	G	A	chr07	25,529,664	GA	GA	GA	GG	GA	GA
chr07_25530235	Os07g0618500	Similar to HPPK/DHPS.;Similar to Dihydropterin pyrophosphokinase /dihydropteroate synthase precursor (EC 2.5.1.15).	3_prime_UTR_variant	folate	T	C	chr07	25,530,235	TC	TC	TC	TT	TC	TC
chr08_2382531	Os08g0143300	AMP-dependent synthetase and ligase domain containing protein.	missense_variant	flavonoid	C	G	chr08	2,382,531	CC	CC	CC	CC	CG	CC
chr08_25592457	Os08g0515900	Similar to Dihydroflavonol-4-reductase.	missense_variant	flavonoid	G	T	chr08	25,592,457	GG	GG	GG	GG	GT	GG
chr08_27833422	Os08g0556200	Similar to Dihydroneopterin aldolase.	intron_variant	folate	C	T	chr08	27,833,422	CT	CT	CT	CT	CT	CT
chr08_27833716	Os08g0556200	Similar to Dihydroneopterin aldolase.	intron_variant	folate	A	G	chr08	27,833,716	AG	AG	AG	AG	AG	AG
chr08_27834093	Os08g0556200	Similar to Dihydroneopterin aldolase.	3_prime_UTR_variant	folate	A	G	chr08	27,834,093	AG	AG	AG	AG	AG	AG
chr08_4898080	Os08g0183900	Similar to dihydroflavonol-4-reductase.	3_prime_UTR_variant	flavonoid	T	C	chr08	4,898,080	TC	TT	TT	TT	TT	TT
chr08_4898415	Os08g0183900	Similar to dihydroflavonol-4-reductase.	3_prime_UTR_variant	flavonoid	G	A	chr08	4,898,415	GA	GG	GG	GG	GG	GG
chr08_4898790	Os08g0183900	Similar to dihydroflavonol-4-reductase.	3_prime_UTR_variant	flavonoid	A	G	chr08	4,898,790	AA	AA	AA	AA	AA	AG
chr08_4898859	Os08g0183900	Similar to dihydroflavonol-4-reductase.	3_prime_UTR_variant	flavonoid	A	T	chr08	4,898,859	AA	AA	AT	AA	AA	AA
chr08_4898933	Os08g0183900	Similar to dihydroflavonol-4-reductase.	synonymous_variant	flavonoid	G	C/A	chr08	4,898,933	GC	GC	GG	GC	GA	GG
chr08_4898933	Os08g0183900	Similar to dihydroflavonol-4-reductase.	missense_variant	flavonoid	G	C/A	chr08	4,898,933	GC	GC	GG	GC	GA	GG
chr08_4900194	Os08g0183900	Similar to dihydroflavonol-4-reductase.	missense_variant	flavonoid	G	C	chr08	4,900,194	GG	GG	GC	GG	GG	GG
chr08_4900215	Os08g0183900	Similar to dihydroflavonol-4-reductase.	missense_variant	flavonoid	G	A	chr08	4,900,215	GA	GG	GG	GG	GG	GG
chr08_8874784	Os08g0245301	Hypothetical gene.	missense_variant	flavonoid	T	G	chr08	8,874,784	TT	TT	TT	TT	TT	TG
chr08_8874784	Os08g0245200	4-coumarate:coenzyme A ligase, Lignin biosynthesis	missense_variant	flavonoid	T	G	chr08	8,874,784	TT	TT	TT	TT	TT	TG
chr08_8877016	Os08g0245301	Hypothetical gene.	intron_variant	flavonoid	G	A	chr08	8,877,016	GG	GG	GG	GG	GG	GA
chr08_8877016	Os08g0245200	4-coumarate:coenzyme A ligase, Lignin biosynthesis	intron_variant	flavonoid	G	A	chr08	8,877,016	GG	GG	GG	GG	GG	GA
chr08_8877334	Os08g0245200	4-coumarate:coenzyme A ligase, Lignin biosynthesis	intron_variant	flavonoid	T	G	chr08	8,877,334	TT	TT	TT	TT	TT	TG
chr08_8877334	Os08g0245301	Hypothetical gene.	intron_variant	flavonoid	T	G	chr08	8,877,334	TT	TT	TT	TT	TT	TG
chr08_8877543	Os08g0245200	4-coumarate:coenzyme A ligase, Lignin biosynthesis	intron_variant	flavonoid	C	T	chr08	8,877,543	CC	CC	CT	CC	CC	CC
chr08_8877543	Os08g0245301	Hypothetical gene.	intron_variant	flavonoid	C	T	chr08	8,877,543	CC	CC	CT	CC	CC	CC
chr08_8877857	Os08g0245301	Hypothetical gene.	5_prime_UTR_variant	flavonoid	C	T	chr08	8,877,857	CC	CC	CC	CC	CC	CT
chr08_8877857	Os08g0245200	4-coumarate:coenzyme A ligase, Lignin biosynthesis	missense_variant	flavonoid	C	T	chr08	8,877,857	CC	CC	CC	CC	CC	CT
chr08_8878091	Os08g0245200	4-coumarate:coenzyme A ligase, Lignin biosynthesis	intron_variant	flavonoid	A	T	chr08	8,878,091	AA	AA	AA	AT	AA	AA
chr08_8878117	Os08g0245200	4-coumarate:coenzyme A ligase, Lignin biosynthesis	intron_variant	flavonoid	A	G	chr08	8,878,117	AA	AA	AA	AA	AA	AG
chr08_8878252	Os08g0245200	4-coumarate:coenzyme A ligase, Lignin biosynthesis	missense_variant	flavonoid	G	A	chr08	8,878,252	GG	GG	GA	GG	GG	GG
chr08_8878321	Os08g0245200	4-coumarate:coenzyme A ligase, Lignin biosynthesis	intron_variant	flavonoid	G	T	chr08	8,878,321	GT	GG	GG	GG	GG	GG
chr08_8878593	Os08g0245200	4-coumarate:coenzyme A ligase, Lignin biosynthesis	3_prime_UTR_variant	flavonoid	C	G	chr08	8,878,593	CC	CC	CC	CC	CC	CG
chr08_8878672	Os08g0245200	4-coumarate:coenzyme A ligase, Lignin biosynthesis	3_prime_UTR_variant	flavonoid	A	C	chr08	8,878,672	AA	AC	AA	AA	AA	AA
chr09_11289403	Os09g0353400	Similar to Leucoanthocyanidin dioxygenase.	intron_variant	flavonoid	C	G	chr09	11,289,403	CC	CC	CC	CG	CC	CC
chr09_11289532	Os09g0353400	Similar to Leucoanthocyanidin dioxygenase.	intron_variant	flavonoid	G	A	chr09	11,289,532	GA	GG	GG	GG	GG	GG
chr09_11291058	Os09g0353400	Similar to Leucoanthocyanidin dioxygenase.	3_prime_UTR_variant	flavonoid	A	C	chr09	11,291,058	AA	AA	AC	AA	AA	AA
chr09_11309538	Os09g0353700	Similar to Leucoanthocyanidin dioxygenase.	intron_variant	flavonoid	C	T	chr09	11,309,538	CT	CC	CC	CC	CC	CC
chr09_11320623	Os09g0354100	Similar to Leucoanthocyanidin dioxygenase.	intron_variant	flavonoid	C	T	chr09	11,320,623	CT	CC	CC	CC	CC	CC
chr09_11321557	Os09g0354100	Similar to Leucoanthocyanidin dioxygenase.	intron_variant	flavonoid	G	A	chr09	11,321,557	GA	GG	GG	GG	GG	GG
chr09_11321796	Os09g0354100	Similar to Leucoanthocyanidin dioxygenase.	intron_variant	flavonoid	T	G	chr09	11,321,796	TT	TT	TT	TT	TT	TG
chr09_11321887	Os09g0354100	Similar to Leucoanthocyanidin dioxygenase.	intron_variant	flavonoid	G	A	chr09	11,321,887	GG	GG	GA	GG	GG	GG
chr09_11322053	Os09g0354100	Similar to Leucoanthocyanidin dioxygenase.	intron_variant	flavonoid	G	A	chr09	11,322,053	GA	GG	GG	GG	GG	GG
chr09_11322892	Os09g0354100	Similar to Leucoanthocyanidin dioxygenase.	missense_variant	flavonoid	C	A	chr09	11,322,892	CC	CC	CA	CC	CC	CC
chr09_19012056	Os09g0491820	Similar to dihydroflavonol-4-reductase.;NAD(P)-binding domain containing protein.	3_prime_UTR_variant	flavonoid	A	G	chr09	19,012,056	AA	AA	AG	AA	AA	AA
chr09_19012056	Os09g0491820	Similar to dihydroflavonol-4-reductase.;NAD(P)-binding domain containing protein.	missense_variant	flavonoid	A	G	chr09	19,012,056	AA	AA	AG	AA	AA	AA
chr09_21923522	Os09g0553300	NUDIX hydrolase domain containing protein.	intron_variant	folate	C	T	chr09	21,923,522	CT	CC	CT	CC	CT	CT
chr09_21924356	Os09g0553300	NUDIX hydrolase domain containing protein.	intron_variant	folate	C	T	chr09	21,924,356	CT	CC	CT	CC	CT	CT
chr09_21924441	Os09g0553300	NUDIX hydrolase domain containing protein.	intron_variant	folate	T	C	chr09	21,924,441	TT	TC	TT	TC	TT	TT
chr09_21924576	Os09g0553300	NUDIX hydrolase domain containing protein.	intron_variant	folate	T	C	chr09	21,924,576	TC	TT	TC	TT	TC	TC
chr09_21925229	Os09g0553300	NUDIX hydrolase domain containing protein.	intron_variant	folate	A	G	chr09	21,925,229	AA	AA	AG	AA	AA	AA
chr09_21925482	Os09g0553300	NUDIX hydrolase domain containing protein.	intron_variant	folate	A	G	chr09	21,925,482	AG	AA	AG	AA	AG	AG
chr09_21925883	Os09g0553300	NUDIX hydrolase domain containing protein.	synonymous_variant	folate	C	A	chr09	21,925,883	CC	CC	CA	CC	CC	CC
chr09_22273266	Os09g0560500	Dihydroneopterin aldolase family protein.	intron_variant	folate	G	A	chr09	22,273,266	GA	GG	GG	GG	GG	GG
chr09_22273270	Os09g0560500	Dihydroneopterin aldolase family protein.	intron_variant	folate	G	C	chr09	22,273,270	GG	GG	GG	GG	GG	GC
chr09_22274040	Os09g0560500	Dihydroneopterin aldolase family protein.	missense_variant	folate	A	G	chr09	22,274,040	AG	AA	AG	AA	AG	AG
chr09_22274263	Os09g0560500	Dihydroneopterin aldolase family protein.	intron_variant	folate	A	G	chr09	22,274,263	AG	AA	AA	AA	AA	AG
chr09_22274617	Os09g0560500	Dihydroneopterin aldolase family protein.	missense_variant	folate	G	A	chr09	22,274,617	GG	GG	GA	GG	GA	GG
chr09_22274644	Os09g0560500	Dihydroneopterin aldolase family protein.	missense_variant	folate	G	A	chr09	22,274,644	GA	GG	GG	GG	GG	GA
chr10_19201609	Os10g0503200	Similar to Folylpolyglutamate synthase.;Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	3_prime_UTR_variant	folate	T	C	chr10	19,201,609	TC	TC	TC	TC	TC	TC
chr10_19202433	Os10g0503200	Similar to Folylpolyglutamate synthase.;Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	3_prime_UTR_variant	folate	C	T	chr10	19,202,433	CT	CT	CT	CT	CT	CT
chr10_19202433	Os10g0503200	Similar to Folylpolyglutamate synthase.;Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	synonymous_variant	folate	C	T	chr10	19,202,433	CT	CT	CT	CT	CT	CT
chr10_19202612	Os10g0503200	Similar to Folylpolyglutamate synthase.;Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	intron_variant	folate	T	C	chr10	19,202,612	TT	TT	TC	TT	TT	TT
chr10_19202618	Os10g0503200	Similar to Folylpolyglutamate synthase.;Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	intron_variant	folate	T	G	chr10	19,202,618	TG	TG	TT	TG	TG	TG
chr10_19203519	Os10g0503200	Similar to Folylpolyglutamate synthase.;Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	3_prime_UTR_variant	folate	A	G	chr10	19,203,519	AG	AG	AG	AG	AG	AG
chr10_19203519	Os10g0503200	Similar to Folylpolyglutamate synthase.;Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	synonymous_variant	folate	A	G	chr10	19,203,519	AG	AG	AG	AG	AG	AG
chr10_19204327	Os10g0503200	Similar to Folylpolyglutamate synthase.;Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	intron_variant	folate	C	A	chr10	19,204,327	CA	CA	CA	CA	CA	CA
chr10_19205367	Os10g0503200	Similar to Folylpolyglutamate synthase.;Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	intron_variant	folate	C	A	chr10	19,205,367	CA	CA	CA	CA	CA	CA
chr10_19205680	Os10g0503200	Similar to Folylpolyglutamate synthase.;Similar to Dihydrofolate synthetase /folylpolyglutamate synthetase.	intron_variant	folate	T	G	chr10	19,205,680	TT	TT	TG	TT	TT	TT
chr10_22020782	Os10g0559450	Conserved hypothetical protein.	intron_variant	flavonoid	T	C	chr10	22,020,782	TT	TT	TC	TT	TT	TT
chr10_22020782	Os10g0559550	Conserved hypothetical protein.	synonymous_variant	flavonoid	T	C	chr10	22,020,782	TT	TT	TC	TT	TT	TT
chr10_22020782	Os10g0559500	2OG-Fe(II) oxygenase domain containing protein.	3_prime_UTR_variant	flavonoid	T	C	chr10	22,020,782	TT	TT	TC	TT	TT	TT
chr10_8496533	Os10g0317900	Chrysoeriol 5'-Hydroxylase, Flavonoid B-ring hydroxylase, Tricin biosynthesis;Similar to Flavonoid 3-monooxygenase.;Non-protein coding transcript.	intron_variant	flavonoid	C	A	chr10	8,496,533	CC	CC	CC	CA	CC	CC
chr10_8498301	Os10g0317900	Chrysoeriol 5'-Hydroxylase, Flavonoid B-ring hydroxylase, Tricin biosynthesis;Similar to Flavonoid 3-monooxygenase.;Non-protein coding transcript.	intron_variant	flavonoid	A	G	chr10	8,498,301	AA	AA	AA	AG	AA	AA
chr10_8501236	Os10g0317900	Chrysoeriol 5'-Hydroxylase, Flavonoid B-ring hydroxylase, Tricin biosynthesis;Similar to Flavonoid 3-monooxygenase.;Non-protein coding transcript.	intron_variant	flavonoid	C	T	chr10	8,501,236	CC	CC	CC	CT	CC	CC
chr11_14672977	Os11g0444000	Similar to UDP-glucosyltransferase BX8.	3_prime_UTR_variant	flavonoid	A	T	chr11	14,672,977	AA	AT	AA	AA	AA	AA
chr11_17054274	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	5_prime_UTR_variant	folate	C	T	chr11	17,054,274	CT	CC	CC	CC	CT	CT
chr11_17054614	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	G	chr11	17,054,614	AA	AA	AA	AG	AA	AA
chr11_17055071	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	T	chr11	17,055,071	AT	AA	AA	AA	AT	AT
chr11_17055551	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	G	A	chr11	17,055,551	GG	GA	GA	GG	GG	GG
chr11_17055581	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	G	chr11	17,055,581	AA	AA	AA	AG	AA	AA
chr11_17055643	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	T	C	chr11	17,055,643	TC	TT	TT	TT	TC	TC
chr11_17055837	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	missense_variant	folate	G	A	chr11	17,055,837	GA	GG	GG	GG	GA	GA
chr11_17056268	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	G	A	chr11	17,056,268	GG	GA	GA	GA	GG	GG
chr11_17056621	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	missense_variant	folate	G	A	chr11	17,056,621	GG	GA	GA	GG	GG	GG
chr11_17056789	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	T	chr11	17,056,789	CT	CT	CT	CT	CT	CT
chr11_17057327	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	T	G	chr11	17,057,327	TG	TG	TG	TG	TG	TG
chr11_17057606	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	G	T	chr11	17,057,606	GG	GG	GG	GT	GG	GG
chr11_17057815	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	G	A	chr11	17,057,815	GG	GA	GA	GG	GG	GG
chr11_17058610	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	G	chr11	17,058,610	CC	CG	CG	CC	CC	CC
chr11_17059755	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	G	chr11	17,059,755	AG	AG	AG	AG	AG	AG
chr11_17060045	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	A	chr11	17,060,045	CA	CC	CA	CC	CA	CA
chr11_17060095	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	T	chr11	17,060,095	AA	AT	AA	AT	AA	AA
chr11_17060688	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	G	chr11	17,060,688	AA	AG	AG	AG	AA	AA
chr11_17060810	Os11g0484400	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	T	G	chr11	17,060,810	TG	TT	TT	TT	TG	TG
chr11_19277598	Os11g0530600	Similar to Chalcone synthase C2 (EC 2.3.1.74) (Naringenin-chalcone synthase C2).	3_prime_UTR_variant	flavonoid	G	A	chr11	19,277,598	GG	GA	GG	GG	GG	GG
chr11_19277885	Os11g0530600	Similar to Chalcone synthase C2 (EC 2.3.1.74) (Naringenin-chalcone synthase C2).	3_prime_UTR_variant	flavonoid	A	G	chr11	19,277,885	AA	AA	AA	AG	AA	AA
chr11_19279512	Os11g0530600	Similar to Chalcone synthase C2 (EC 2.3.1.74) (Naringenin-chalcone synthase C2).	intron_variant	flavonoid	C	T	chr11	19,279,512	CC	CC	CC	CT	CC	CC
chr11_19280030	Os11g0530600	Similar to Chalcone synthase C2 (EC 2.3.1.74) (Naringenin-chalcone synthase C2).	intron_variant	flavonoid	T	C	chr11	19,280,030	TT	TT	TT	TT	TT	TC
chr11_19280040	Os11g0530600	Similar to Chalcone synthase C2 (EC 2.3.1.74) (Naringenin-chalcone synthase C2).	intron_variant	flavonoid	T	G	chr11	19,280,040	TT	TT	TT	TG	TT	TT
chr11_19280523	Os11g0530600	Similar to Chalcone synthase C2 (EC 2.3.1.74) (Naringenin-chalcone synthase C2).	intron_variant	flavonoid	T	C	chr11	19,280,523	TT	TC	TT	TT	TT	TT
chr11_19280781	Os11g0530600	Similar to Chalcone synthase C2 (EC 2.3.1.74) (Naringenin-chalcone synthase C2).	synonymous_variant	flavonoid	C	T	chr11	19,280,781	CC	CC	CC	CC	CC	CT
chr11_19280813	Os11g0530600	Similar to Chalcone synthase C2 (EC 2.3.1.74) (Naringenin-chalcone synthase C2).	missense_variant	flavonoid	C	T	chr11	19,280,813	CT	CC	CC	CC	CC	CC
chr11_19280957	Os11g0530600	Similar to Chalcone synthase C2 (EC 2.3.1.74) (Naringenin-chalcone synthase C2).	5_prime_UTR_variant	flavonoid	G	A	chr11	19,280,957	GG	GA	GG	GG	GG	GG
chr11_19281003	Os11g0530600	Similar to Chalcone synthase C2 (EC 2.3.1.74) (Naringenin-chalcone synthase C2).	5_prime_UTR_variant	flavonoid	C	T	chr11	19,281,003	CC	CC	CC	CC	CC	CT
chr11_22927285	Os11g0599200	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	missense_variant	flavonoid	C	T	chr11	22,927,285	CC	CC	CC	CC	CC	CT
chr11_22927976	Os11g0599200	UDP-glucuronosyl/UDP-glucosyltransferase family protein.	5_prime_UTR_variant	flavonoid	G	A	chr11	22,927,976	GG	GG	GG	GG	GG	GA
chr11_23922548	Os11g0615250	Similar to Bifunctional dihydrofolate reductase-thymidylate synthase.	5_prime_UTR_variant	folate	G	A	chr11	23,922,548	GG	GG	GG	GG	GG	GA
chr11_23922669	Os11g0615250	Similar to Bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	A	chr11	23,922,669	CA	CC	CC	CA	CC	CC
chr11_23922742	Os11g0615250	Similar to Bifunctional dihydrofolate reductase-thymidylate synthase.	synonymous_variant	folate	C	T	chr11	23,922,742	CC	CC	CC	CC	CC	CT
chr11_23922806	Os11g0615250	Similar to Bifunctional dihydrofolate reductase-thymidylate synthase.	missense_variant	folate	T	A	chr11	23,922,806	TT	TA	TT	TT	TT	TT
chr11_23922887	Os11g0615250	Similar to Bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	T	chr11	23,922,887	AA	AA	AT	AA	AT	AA
chr11_23922892	Os11g0615250	Similar to Bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	T	chr11	23,922,892	AT	AA	AA	AT	AA	AA
chr11_23923117	Os11g0615250	Similar to Bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	T	A	chr11	23,923,117	TA	TT	TT	TT	TT	TT
chr11_23923209	Os11g0615250	Similar to Bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	T	chr11	23,923,209	CC	CC	CC	CT	CC	CC
chr11_23923412	Os11g0615250	Similar to Bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	G	A	chr11	23,923,412	GG	GG	GA	GG	GA	GG
chr11_23923418	Os11g0615250	Similar to Bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	G	chr11	23,923,418	AA	AG	AA	AA	AA	AG
chr11_732174	Os11g0116300	Chalcone isomerase domain containing protein.	intron_variant	flavonoid	G	A	chr11	732,174	GG	GG	GG	GG	GG	GA
chr12_15130974	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	A	chr12	15,130,974	CA	CA	CA	CC	CA	CA
chr12_15131238	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	T	chr12	15,131,238	AA	AA	AA	AT	AA	AA
chr12_15131517	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	T	chr12	15,131,517	CT	CT	CT	CC	CT	CT
chr12_15131669	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	G	T	chr12	15,131,669	GT	GT	GT	GG	GT	GT
chr12_15131694	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	G	A	chr12	15,131,694	GG	GG	GG	GA	GG	GG
chr12_15131924	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	G	A	chr12	15,131,924	GG	GG	GG	GA	GG	GA
chr12_15132005	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	G	chr12	15,132,005	AG	AA	AA	AA	AA	AA
chr12_15132460	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	T	chr12	15,132,460	CT	CT	CT	CC	CT	CT
chr12_15132878	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	T	C	chr12	15,132,878	TC	TC	TC	TT	TC	TC
chr12_15132907	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	T	chr12	15,132,907	CC	CC	CC	CT	CC	CC
chr12_15133107	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	T	chr12	15,133,107	CC	CC	CC	CT	CC	CT
chr12_15133111	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	T	C	chr12	15,133,111	TC	TC	TC	TT	TC	TT
chr12_15133431	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	T	chr12	15,133,431	CT	CT	CT	CC	CT	CT
chr12_15133454	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	T	C	chr12	15,133,454	TT	TT	TT	TC	TT	TT
chr12_15133797	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	T	chr12	15,133,797	CT	CT	CT	CC	CT	CT
chr12_15133807	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	G	chr12	15,133,807	AA	AA	AA	AG	AA	AA
chr12_15134595	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	synonymous_variant	folate	T	C	chr12	15,134,595	TT	TT	TC	TC	TT	TT
chr12_15135249	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	G	chr12	15,135,249	CC	CC	CC	CG	CC	CC
chr12_15135972	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	C	chr12	15,135,972	AC	AC	AC	AA	AC	AC
chr12_15136166	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	A	T	chr12	15,136,166	AT	AT	AT	AT	AT	AT
chr12_15137007	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	T	C	chr12	15,137,007	TC	TC	TC	TC	TC	TC
chr12_15137232	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	G	A	chr12	15,137,232	GA	GA	GA	GG	GA	GA
chr12_15137384	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	A	chr12	15,137,384	CA	CA	CA	CC	CA	CA
chr12_15138358	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	G	T	chr12	15,138,358	GG	GG	GT	GT	GG	GG
chr12_15138951	Os12g0446900	Similar to bifunctional dihydrofolate reductase-thymidylate synthase.	intron_variant	folate	C	G	chr12	15,138,951	CG	CG	CG	CC	CG	CG
chr12_26636096	Os12g0623800	Similar to GLA1.	synonymous_variant	folate	A	G	chr12	26,636,096	AG	AG	AG	AG	AG	AG
chr12_26636488	Os12g0623800	Similar to GLA1.	intron_variant	folate	T	C	chr12	26,636,488	TC	TC	TC	TC	TC	TC
	RAPDB ID	Gene descriptions	SNP effects	Pathways