rs10089263

Organism: Homo sapiens

Alleles: A>T

Gene : Feature

MSRA : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

T=0385 (11510/29892,GnomAD)
T=0369 (10753/29118,TOPMED)
T=0342 (1715/5008,1000G)
T=0389 (1500/3854,ALSPAC)
T=0386 (1432/3708,TWINSUK)

Position: chr8:10318996 (GRCh38.p7) (8p23.1)

Phenotype: ND

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 397 Enhancers around

Promoter: 0 Promoter around

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 8	NC_000008.11:g.10318996A>T
GRCh37.p13 chr 8	NC_000008.10:g.10176506A>T

Gene: MSRA, methionine sulfoxide reductase A(plus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
MSRA transcript variant 2	NM_001135670.2:c.	N/A	Intron Variant
MSRA transcript variant 3	NM_001135671.2:c.	N/A	Intron Variant
MSRA transcript variant 4	NM_001199729.2:c.	N/A	Intron Variant
MSRA transcript variant 1	NM_012331.4:c.	N/A	Intron Variant
MSRA transcript variant X1	XM_011543822.1:c.	N/A	Intron Variant
MSRA transcript variant X2	XM_011543823.2:c.	N/A	Intron Variant
MSRA transcript variant X3	XM_017013448.1:c.	N/A	Intron Variant
MSRA transcript variant X4	XM_017013449.1:c.	N/A	Intron Variant
MSRA transcript variant X5	XM_017013450.1:c.	N/A	Intron Variant
MSRA transcript variant X6	XM_017013451.1:c.	N/A	Intron Variant
MSRA transcript variant X7	XM_017013452.1:c.	N/A	Intron Variant
MSRA transcript variant X8	XM_017013453.1:c.	N/A	Intron Variant
MSRA transcript variant X9	XM_017013454.1:c.	N/A	Intron Variant

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	A=0.697	T=0.303
1000Genomes	American	Sub	694	A=0.680	T=0.320
1000Genomes	East Asian	Sub	1008	A=0.644	T=0.356
1000Genomes	Europe	Sub	1006	A=0.626	T=0.374
1000Genomes	Global	Study-wide	5008	A=0.658	T=0.342
1000Genomes	South Asian	Sub	978	A=0.630	T=0.370
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	A=0.611	T=0.389
The Genome Aggregation Database	African	Sub	8694	A=0.656	T=0.344
The Genome Aggregation Database	American	Sub	834	A=0.710	T=0.290
The Genome Aggregation Database	East Asian	Sub	1616	A=0.630	T=0.370
The Genome Aggregation Database	Europe	Sub	18446	A=0.589	T=0.411
The Genome Aggregation Database	Global	Study-wide	29892	A=0.614	T=0.385
The Genome Aggregation Database	Other	Sub	302	A=0.690	T=0.310
Trans-Omics for Precision Medicine	Global	Study-wide	29118	A=0.630	T=0.369
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	A=0.614	T=0.386

PMID	Title	Author	Journal
19268276	Genome-wide association study of smoking initiation and current smoking.	Vink JM	Am J Hum Genet

P-Value

SNP ID	p-value	Traits	Study
rs10089263	0.000992	nicotine smoking	19268276

eQTL of rs10089263 in Brain tissues (GTEx Analysis Release V7)

Position (v37)	eGene	GeneID	Variant	p-value	TSS	Tissue
There is no eQTL annotation for this SNP

meQTL of rs10089263 in Fetal Brain

Probe ID	Position	Gene	beta	p-value
There is no meQTL annotation for this SNP

Genomic View

Chromatin Interaction

There is no significant Hi-C chromatin interaction data for this SNP.

Enhancer Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr8	10127986	10128110	E067	-48396
chr8	10160311	10160379	E067	-16127
chr8	10160453	10160694	E067	-15812
chr8	10166182	10166232	E067	-10274
chr8	10166535	10166585	E067	-9921
chr8	10166799	10167112	E067	-9394
chr8	10167123	10167323	E067	-9183
chr8	10167508	10167814	E067	-8692
chr8	10168251	10168301	E067	-8205
chr8	10168585	10168678	E067	-7828
chr8	10168940	10168990	E067	-7516
chr8	10183405	10183462	E067	6899
chr8	10183549	10183599	E067	7043
chr8	10183757	10183944	E067	7251
chr8	10188288	10188328	E067	11782
chr8	10188537	10188646	E067	12031
chr8	10188985	10189158	E067	12479
chr8	10189527	10189683	E067	13021
chr8	10189802	10189916	E067	13296
chr8	10189966	10190028	E067	13460
chr8	10190071	10193655	E067	13565
chr8	10195602	10195788	E067	19096
chr8	10196364	10196414	E067	19858
chr8	10196431	10196571	E067	19925
chr8	10220518	10221058	E067	44012
chr8	10127986	10128110	E068	-48396
chr8	10128267	10128317	E068	-48189
chr8	10188422	10188513	E068	11916
chr8	10188537	10188646	E068	12031
chr8	10188889	10188929	E068	12383
chr8	10188985	10189158	E068	12479
chr8	10189802	10189916	E068	13296
chr8	10189966	10190028	E068	13460
chr8	10190071	10193655	E068	13565
chr8	10218219	10218336	E068	41713
chr8	10218349	10218409	E068	41843
chr8	10218432	10218472	E068	41926
chr8	10223168	10223352	E068	46662
chr8	10223362	10224106	E068	46856
chr8	10127986	10128110	E069	-48396
chr8	10166182	10166232	E069	-10274
chr8	10166535	10166585	E069	-9921
chr8	10166799	10167112	E069	-9394
chr8	10167123	10167323	E069	-9183
chr8	10167978	10168129	E069	-8377
chr8	10168251	10168301	E069	-8205
chr8	10168585	10168678	E069	-7828
chr8	10168940	10168990	E069	-7516
chr8	10183757	10183944	E069	7251
chr8	10188288	10188328	E069	11782
chr8	10188422	10188513	E069	11916
chr8	10188537	10188646	E069	12031
chr8	10188889	10188929	E069	12383
chr8	10188985	10189158	E069	12479
chr8	10189802	10189916	E069	13296
chr8	10189966	10190028	E069	13460
chr8	10190071	10193655	E069	13565
chr8	10220235	10220481	E069	43729
chr8	10220518	10221058	E069	44012
chr8	10223168	10223352	E069	46662
chr8	10223362	10224106	E069	46856
chr8	10224218	10224258	E069	47712
chr8	10126739	10126847	E070	-49659
chr8	10126897	10126951	E070	-49555
chr8	10126962	10127066	E070	-49440
chr8	10132772	10132822	E070	-43684
chr8	10133023	10133399	E070	-43107
chr8	10133500	10133584	E070	-42922
chr8	10134869	10134919	E070	-41587
chr8	10135804	10135864	E070	-40642
chr8	10136148	10136198	E070	-40308
chr8	10138615	10138665	E070	-37841
chr8	10139179	10139236	E070	-37270
chr8	10139307	10139393	E070	-37113
chr8	10139457	10139521	E070	-36985
chr8	10139902	10140017	E070	-36489
chr8	10150753	10151216	E070	-25290
chr8	10151336	10151404	E070	-25102
chr8	10152123	10152173	E070	-24333
chr8	10152182	10152232	E070	-24274
chr8	10152476	10152531	E070	-23975
chr8	10152555	10152684	E070	-23822
chr8	10152731	10152812	E070	-23694
chr8	10152911	10152961	E070	-23545
chr8	10153655	10153705	E070	-22801
chr8	10153802	10153856	E070	-22650
chr8	10154017	10154067	E070	-22439
chr8	10154082	10154195	E070	-22311
chr8	10154340	10154443	E070	-22063
chr8	10158330	10158664	E070	-17842
chr8	10159084	10159173	E070	-17333
chr8	10159228	10159401	E070	-17105
chr8	10159589	10159725	E070	-16781
chr8	10159817	10160065	E070	-16441
chr8	10160113	10160210	E070	-16296
chr8	10160311	10160379	E070	-16127
chr8	10160453	10160694	E070	-15812
chr8	10160711	10160761	E070	-15745
chr8	10165603	10165657	E070	-10849
chr8	10166182	10166232	E070	-10274
chr8	10166535	10166585	E070	-9921
chr8	10166799	10167112	E070	-9394
chr8	10167123	10167323	E070	-9183
chr8	10167508	10167814	E070	-8692
chr8	10167978	10168129	E070	-8377
chr8	10168251	10168301	E070	-8205
chr8	10168585	10168678	E070	-7828
chr8	10168940	10168990	E070	-7516
chr8	10170585	10170771	E070	-5735
chr8	10183405	10183462	E070	6899
chr8	10183549	10183599	E070	7043
chr8	10183757	10183944	E070	7251
chr8	10188889	10188929	E070	12383
chr8	10188985	10189158	E070	12479
chr8	10189527	10189683	E070	13021
chr8	10189802	10189916	E070	13296
chr8	10189966	10190028	E070	13460
chr8	10193785	10194206	E070	17279
chr8	10194263	10194687	E070	17757
chr8	10194991	10195197	E070	18485
chr8	10195226	10195378	E070	18720
chr8	10206220	10206293	E070	29714
chr8	10206339	10206581	E070	29833
chr8	10206820	10206889	E070	30314
chr8	10220235	10220481	E070	43729
chr8	10220518	10221058	E070	44012
chr8	10221792	10223144	E070	45286
chr8	10223168	10223352	E070	46662
chr8	10223362	10224106	E070	46856
chr8	10127986	10128110	E071	-48396
chr8	10128267	10128317	E071	-48189
chr8	10128340	10128447	E071	-48059
chr8	10166182	10166232	E071	-10274
chr8	10166535	10166585	E071	-9921
chr8	10166799	10167112	E071	-9394
chr8	10167123	10167323	E071	-9183
chr8	10167508	10167814	E071	-8692
chr8	10167978	10168129	E071	-8377
chr8	10168251	10168301	E071	-8205
chr8	10188422	10188513	E071	11916
chr8	10188537	10188646	E071	12031
chr8	10188889	10188929	E071	12383
chr8	10188985	10189158	E071	12479
chr8	10189527	10189683	E071	13021
chr8	10189802	10189916	E071	13296
chr8	10189966	10190028	E071	13460
chr8	10190071	10193655	E071	13565
chr8	10196364	10196414	E071	19858
chr8	10196431	10196571	E071	19925
chr8	10196649	10196784	E071	20143
chr8	10223362	10224106	E071	46856
chr8	10225965	10226037	E071	49459
chr8	10226102	10226222	E071	49596
chr8	10226337	10226444	E071	49831
chr8	10166182	10166232	E072	-10274
chr8	10166535	10166585	E072	-9921
chr8	10167508	10167814	E072	-8692
chr8	10167978	10168129	E072	-8377
chr8	10168251	10168301	E072	-8205
chr8	10188537	10188646	E072	12031
chr8	10188889	10188929	E072	12383
chr8	10188985	10189158	E072	12479
chr8	10189527	10189683	E072	13021
chr8	10189802	10189916	E072	13296
chr8	10189966	10190028	E072	13460
chr8	10209589	10209717	E072	33083
chr8	10209807	10211099	E072	33301
chr8	10220235	10220481	E072	43729
chr8	10223362	10224106	E072	46856
chr8	10127986	10128110	E073	-48396
chr8	10150605	10150691	E073	-25815
chr8	10150753	10151216	E073	-25290
chr8	10159817	10160065	E073	-16441
chr8	10160113	10160210	E073	-16296
chr8	10160311	10160379	E073	-16127
chr8	10160453	10160694	E073	-15812
chr8	10166535	10166585	E073	-9921
chr8	10166799	10167112	E073	-9394
chr8	10167123	10167323	E073	-9183
chr8	10183757	10183944	E073	7251
chr8	10184021	10184061	E073	7515
chr8	10188537	10188646	E073	12031
chr8	10188889	10188929	E073	12383
chr8	10188985	10189158	E073	12479
chr8	10189966	10190028	E073	13460
chr8	10190071	10193655	E073	13565
chr8	10193785	10194206	E073	17279
chr8	10218680	10218768	E073	42174
chr8	10223362	10224106	E073	46856
chr8	10224218	10224258	E073	47712
chr8	10225965	10226037	E073	49459
chr8	10226102	10226222	E073	49596
chr8	10226337	10226444	E073	49831
chr8	10127986	10128110	E074	-48396
chr8	10128267	10128317	E074	-48189
chr8	10128340	10128447	E074	-48059
chr8	10128575	10128674	E074	-47832
chr8	10128685	10128872	E074	-47634
chr8	10152123	10152173	E074	-24333
chr8	10152182	10152232	E074	-24274
chr8	10152476	10152531	E074	-23975
chr8	10152555	10152684	E074	-23822
chr8	10152731	10152812	E074	-23694
chr8	10166182	10166232	E074	-10274
chr8	10166535	10166585	E074	-9921
chr8	10167508	10167814	E074	-8692
chr8	10167978	10168129	E074	-8377
chr8	10168251	10168301	E074	-8205
chr8	10189966	10190028	E074	13460
chr8	10190071	10193655	E074	13565
chr8	10195822	10195917	E074	19316
chr8	10196022	10196068	E074	19516
chr8	10196194	10196248	E074	19688
chr8	10196364	10196414	E074	19858
chr8	10196431	10196571	E074	19925
chr8	10196649	10196784	E074	20143
chr8	10196841	10197005	E074	20335
chr8	10126739	10126847	E081	-49659
chr8	10126897	10126951	E081	-49555
chr8	10126962	10127066	E081	-49440
chr8	10127986	10128110	E081	-48396
chr8	10128267	10128317	E081	-48189
chr8	10128340	10128447	E081	-48059
chr8	10128575	10128674	E081	-47832
chr8	10128685	10128872	E081	-47634
chr8	10128911	10128961	E081	-47545
chr8	10129807	10129878	E081	-46628
chr8	10129976	10130246	E081	-46260
chr8	10131245	10131722	E081	-44784
chr8	10131873	10131930	E081	-44576
chr8	10133500	10133584	E081	-42922
chr8	10139179	10139236	E081	-37270
chr8	10139307	10139393	E081	-37113
chr8	10139457	10139521	E081	-36985
chr8	10149860	10149933	E081	-26573
chr8	10152182	10152232	E081	-24274
chr8	10152476	10152531	E081	-23975
chr8	10152555	10152684	E081	-23822
chr8	10152731	10152812	E081	-23694
chr8	10157541	10157674	E081	-18832
chr8	10158330	10158664	E081	-17842
chr8	10159084	10159173	E081	-17333
chr8	10159228	10159401	E081	-17105
chr8	10159589	10159725	E081	-16781
chr8	10159817	10160065	E081	-16441
chr8	10160113	10160210	E081	-16296
chr8	10160311	10160379	E081	-16127
chr8	10160453	10160694	E081	-15812
chr8	10160711	10160761	E081	-15745
chr8	10166182	10166232	E081	-10274
chr8	10166535	10166585	E081	-9921
chr8	10166799	10167112	E081	-9394
chr8	10167123	10167323	E081	-9183
chr8	10167508	10167814	E081	-8692
chr8	10167978	10168129	E081	-8377
chr8	10168251	10168301	E081	-8205
chr8	10168585	10168678	E081	-7828
chr8	10168940	10168990	E081	-7516
chr8	10171787	10172734	E081	-3772
chr8	10182463	10182514	E081	5957
chr8	10182641	10182691	E081	6135
chr8	10187168	10187218	E081	10662
chr8	10187501	10187600	E081	10995
chr8	10188288	10188328	E081	11782
chr8	10188422	10188513	E081	11916
chr8	10188537	10188646	E081	12031
chr8	10188889	10188929	E081	12383
chr8	10188985	10189158	E081	12479
chr8	10189527	10189683	E081	13021
chr8	10189802	10189916	E081	13296
chr8	10189966	10190028	E081	13460
chr8	10190071	10193655	E081	13565
chr8	10193785	10194206	E081	17279
chr8	10194263	10194687	E081	17757
chr8	10194991	10195197	E081	18485
chr8	10195226	10195378	E081	18720
chr8	10195602	10195788	E081	19096
chr8	10195822	10195917	E081	19316
chr8	10196022	10196068	E081	19516
chr8	10196194	10196248	E081	19688
chr8	10196364	10196414	E081	19858
chr8	10196431	10196571	E081	19925
chr8	10196649	10196784	E081	20143
chr8	10196841	10197005	E081	20335
chr8	10197575	10197739	E081	21069
chr8	10200230	10200444	E081	23724
chr8	10200629	10200949	E081	24123
chr8	10200967	10201228	E081	24461
chr8	10206220	10206293	E081	29714
chr8	10206339	10206581	E081	29833
chr8	10206820	10206889	E081	30314
chr8	10206958	10207013	E081	30452
chr8	10207021	10207075	E081	30515
chr8	10207101	10207181	E081	30595
chr8	10207367	10207666	E081	30861
chr8	10207815	10207925	E081	31309
chr8	10207958	10208702	E081	31452
chr8	10209096	10209329	E081	32590
chr8	10209589	10209717	E081	33083
chr8	10209807	10211099	E081	33301
chr8	10211611	10211709	E081	35105
chr8	10211768	10211818	E081	35262
chr8	10211823	10211873	E081	35317
chr8	10212358	10212485	E081	35852
chr8	10212933	10213021	E081	36427
chr8	10213564	10213627	E081	37058
chr8	10215635	10215685	E081	39129
chr8	10215705	10215755	E081	39199
chr8	10217559	10217678	E081	41053
chr8	10218219	10218336	E081	41713
chr8	10218349	10218409	E081	41843
chr8	10218432	10218472	E081	41926
chr8	10218680	10218768	E081	42174
chr8	10219124	10219174	E081	42618
chr8	10219567	10219645	E081	43061
chr8	10220235	10220481	E081	43729
chr8	10220518	10221058	E081	44012
chr8	10221572	10221622	E081	45066
chr8	10221792	10223144	E081	45286
chr8	10223168	10223352	E081	46662
chr8	10223362	10224106	E081	46856
chr8	10224218	10224258	E081	47712
chr8	10224619	10224712	E081	48113
chr8	10224935	10224988	E081	48429
chr8	10225400	10225454	E081	48894
chr8	10225570	10225683	E081	49064
chr8	10225766	10225828	E081	49260
chr8	10225965	10226037	E081	49459
chr8	10226102	10226222	E081	49596
chr8	10226337	10226444	E081	49831
chr8	10127986	10128110	E082	-48396
chr8	10128267	10128317	E082	-48189
chr8	10128340	10128447	E082	-48059
chr8	10138615	10138665	E082	-37841
chr8	10139179	10139236	E082	-37270
chr8	10139307	10139393	E082	-37113
chr8	10152123	10152173	E082	-24333
chr8	10152182	10152232	E082	-24274
chr8	10158330	10158664	E082	-17842
chr8	10159084	10159173	E082	-17333
chr8	10159228	10159401	E082	-17105
chr8	10159589	10159725	E082	-16781
chr8	10159817	10160065	E082	-16441
chr8	10160113	10160210	E082	-16296
chr8	10170585	10170771	E082	-5735
chr8	10171130	10171180	E082	-5326
chr8	10188288	10188328	E082	11782
chr8	10188422	10188513	E082	11916
chr8	10188537	10188646	E082	12031
chr8	10188889	10188929	E082	12383
chr8	10188985	10189158	E082	12479
chr8	10189527	10189683	E082	13021
chr8	10189802	10189916	E082	13296
chr8	10189966	10190028	E082	13460
chr8	10193785	10194206	E082	17279
chr8	10194263	10194687	E082	17757
chr8	10194991	10195197	E082	18485
chr8	10195226	10195378	E082	18720
chr8	10195602	10195788	E082	19096
chr8	10195822	10195917	E082	19316
chr8	10196022	10196068	E082	19516
chr8	10196194	10196248	E082	19688
chr8	10196364	10196414	E082	19858
chr8	10196431	10196571	E082	19925
chr8	10197575	10197739	E082	21069
chr8	10200089	10200217	E082	23583
chr8	10200230	10200444	E082	23724
chr8	10200629	10200949	E082	24123
chr8	10200967	10201228	E082	24461
chr8	10201470	10201606	E082	24964
chr8	10206339	10206581	E082	29833
chr8	10206820	10206889	E082	30314
chr8	10206958	10207013	E082	30452
chr8	10207021	10207075	E082	30515
chr8	10207101	10207181	E082	30595
chr8	10207367	10207666	E082	30861
chr8	10207815	10207925	E082	31309
chr8	10207958	10208702	E082	31452
chr8	10209096	10209329	E082	32590
chr8	10209589	10209717	E082	33083
chr8	10217559	10217678	E082	41053
chr8	10218219	10218336	E082	41713
chr8	10218349	10218409	E082	41843
chr8	10218432	10218472	E082	41926
chr8	10218680	10218768	E082	42174
chr8	10220235	10220481	E082	43729
chr8	10220518	10221058	E082	44012
chr8	10221572	10221622	E082	45066
chr8	10221792	10223144	E082	45286
chr8	10223362	10224106	E082	46856
chr8	10224218	10224258	E082	47712
chr8	10224619	10224712	E082	48113
chr8	10224935	10224988	E082	48429
chr8	10225400	10225454	E082	48894
chr8	10225570	10225683	E082	49064
chr8	10225766	10225828	E082	49260
chr8	10225965	10226037	E082	49459