Expression-SNP – MyRiceBase

Search for expression SNP based on SNP effect OR OR chromosomes

SNP effect :

Chr :

Gene ID	SNP ID	SNP effect	OsID	Gene description	Allele	Chr	Pos	Bali	PH9	MRM16	MRQ100	MR297	MRQ76
Os01g0281000	chr01_10004053	5_prime_UTR_variant	Os01g0281000	Cyclin-like F-box domain containing protein.	G/A	chr01	10,004,053	GG	GG	GG	GG	GG	GA
Os01g0281000	chr01_10004280	5_prime_UTR_variant	Os01g0281000	Cyclin-like F-box domain containing protein.	G/T	chr01	10,004,280	GG	GG	GT	GG	GG	GG
Os01g0281000	chr01_10004348	5_prime_UTR_variant	Os01g0281000	Cyclin-like F-box domain containing protein.	C/A	chr01	10,004,348	CC	CC	CC	CC	CC	CA
Os01g0281000	chr01_10004405	5_prime_UTR_variant	Os01g0281000	Cyclin-like F-box domain containing protein.	A/T	chr01	10,004,405	AA	AT	AA	AA	AA	AA
Os01g0281000	chr01_10004634	5_prime_UTR_variant	Os01g0281000	Cyclin-like F-box domain containing protein.	C/T	chr01	10,004,634	CC	CC	CC	CC	CC	CT
Os01g0281050	chr01_10004913	synonymous_variant	Os01g0281050	Hypothetical protein.	C/A	chr01	10,004,913	CC	CC	CA	CA	CA	CA
Os01g0281000	chr01_10004913	synonymous_variant	Os01g0281000	Cyclin-like F-box domain containing protein.	C/A	chr01	10,004,913	CC	CC	CA	CA	CA	CA
Os01g0281000	chr01_10005306	synonymous_variant	Os01g0281000	Cyclin-like F-box domain containing protein.	C/G	chr01	10,005,306	CC	CC	CG	CC	CC	CC
Os01g0281000	chr01_10007227	synonymous_variant	Os01g0281000	Cyclin-like F-box domain containing protein.	G/A	chr01	10,007,227	GG	GG	GA	GA	GA	GG
Os01g0281000	chr01_10007236	missense_variant	Os01g0281000	Cyclin-like F-box domain containing protein.	C/A	chr01	10,007,236	CC	CC	CC	CC	CC	CA
		SNP effect				Chr

Search for deleterious SNPs in expressed genes:

SNP effect :

Chr :

SIFT score :

Gene ID	Gene description	Gene name	OsID	SNP ID	SNP effect	Chr	Pos	Allele	Transcript ID	Amino acid position	Amino acid allele	SIFT score	dbsnp	Bali	PH9	MRM16	MRQ100	MR297	MRQ76
Os01g0105700	Basic helix-loop-helix dimerisation region bHLH domain containing protein.	NA	Os01g0105700	chr01_304376	missense_variant	chr01	304376	T/C	OS01T0105700-01	180	L/P	0.03	rs17971897	TC	TC	TC	TC	TC	TT
Os01g0105800	Similar to Iron sulfur assembly protein 1.	NA	Os01g0105800	chr01_307330	missense_variant	chr01	307330	C/T	OS01T0105800-01	97	G/S	0.00	novel	CT	CT	CT	CT	CT	CC
Os01g0106700	Hypothetical conserved gene.	NA	Os01g0106700	chr01_336044	missense_variant	chr01	336044	G/A	OS01T0106700-00	50	A/T	0.03	rs17973643	GG	GA	GG	GA	GA	GG
Os01g0106700	Hypothetical conserved gene.	NA	Os01g0106700	chr01_359507	missense_variant	chr01	359507	A/T	OS01T0106700-00	1533	N/I	0.02	novel	AA	AA	AT	AA	AA	AA
Os01g0108200	Similar to Prolyl endopeptidase (EC 3.4.21.26) (Post-proline cleaving enzyme) (PE).	NA	Os01g0108200	chr01_441618	missense_variant	chr01	441618	G/A	OS01T0108200-01	72	R/H	0.02	rs17983103	GA	GG	GG	GG	GG	GG
Os01g0113650	Hypothetical conserved gene.	NA	Os01g0113650	chr01_739339	missense_variant	chr01	739339	G/A	OS01T0113650-00	138	V/M	0.01	novel	GG	GG	GA	GG	GG	GG
Os01g0113700	Similar to Receptor-like kinase.	NA	Os01g0113700	chr01_743539	missense_variant	chr01	743539	A/G	OS01T0113700-00	467	L/P	0.00	novel	AA	AA	AA	AG	AA	AA
Os01g0114100	Similar to Protein kinase RLK17.	NA	Os01g0114100	chr01_769480	missense_variant	chr01	769480	G/A	OS01T0114100-01	46	R/W	0.02	rs18033390	GG	GA	GG	GG	GA	GG
Os01g0116400	Protein kinase, core domain containing protein.	NA	Os01g0116400	chr01_923294	missense_variant	chr01	923294	C/T	OS01T0116400-01	97	D/N	0.02	novel	CC	CC	CC	CC	CC	CT
Os01g0116900	Protein kinase, catalytic domain domain containing protein.	NA	Os01g0116900	chr01_924560	missense_variant	chr01	924560	G/A	OS01T0116900-00	37	C/Y	0.00	novel	GG	GG	GG	GG	GG	GA
					SNP effect	Chr						SIFT score