rs82977

Organism: Homo sapiens

Alleles: G>A

Gene : Feature

LASP1 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

G==0040 (1202/29948,GnomAD)
G==0041 (1215/29118,TOPMED)
G==0107 (538/5008,1000G)
G==0024 (94/3854,ALSPAC)
G==0030 (110/3708,TWINSUK)

Position: chr17:38908095 (GRCh38.p7) (17q12)

Phenotype: ND

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 442 Enhancers around

Promoter: 11 Promoters around

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 17	NC_000017.11:g.38908095G>A
GRCh37.p13 chr 17	NC_000017.10:g.37064348G>A

Gene: LASP1, LIM and SH3 protein 1(plus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
LASP1 transcript variant 2	NM_001271608.1:c.	N/A	Intron Variant
LASP1 transcript variant 1	NM_006148.3:c.	N/A	Intron Variant
LASP1 transcript variant 3	NR_073384.1:n.	N/A	Intron Variant

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.010	A=0.990
1000Genomes	American	Sub	694	G=0.290	A=0.710
1000Genomes	East Asian	Sub	1008	G=0.063	A=0.937
1000Genomes	Europe	Sub	1006	G=0.048	A=0.952
1000Genomes	Global	Study-wide	5008	G=0.107	A=0.893
1000Genomes	South Asian	Sub	978	G=0.220	A=0.780
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.024	A=0.976
The Genome Aggregation Database	African	Sub	8720	G=0.016	A=0.984
The Genome Aggregation Database	American	Sub	836	G=0.320	A=0.680
The Genome Aggregation Database	East Asian	Sub	1618	G=0.064	A=0.936
The Genome Aggregation Database	Europe	Sub	18472	G=0.036	A=0.963
The Genome Aggregation Database	Global	Study-wide	29948	G=0.040	A=0.959
The Genome Aggregation Database	Other	Sub	302	G=0.070	A=0.930
Trans-Omics for Precision Medicine	Global	Study-wide	29118	G=0.041	A=0.958
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.030	A=0.970

PMID	Title	Author	Journal
20158304	A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.	Lind PA	Twin Res Hum Genet

P-Value

SNP ID	p-value	Traits	Study
rs82977	1.19E-05	alcohol and nictotine co-dependence	20158304

eQTL of rs82977 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 rs82977 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 )
chr17	37029490	37029562	E067	-34786
chr17	37029667	37029749	E067	-34599
chr17	37029919	37030193	E067	-34155
chr17	37030264	37030550	E067	-33798
chr17	37030592	37030642	E067	-33706
chr17	37030673	37030746	E067	-33602
chr17	37030808	37030985	E067	-33363
chr17	37031087	37032408	E067	-31940
chr17	37033426	37033640	E067	-30708
chr17	37033678	37034201	E067	-30147
chr17	37035782	37037087	E067	-27261
chr17	37037149	37037206	E067	-27142
chr17	37037273	37037323	E067	-27025
chr17	37037402	37037547	E067	-26801
chr17	37037731	37038463	E067	-25885
chr17	37038492	37038548	E067	-25800
chr17	37038799	37038870	E067	-25478
chr17	37038911	37039071	E067	-25277
chr17	37039088	37039138	E067	-25210
chr17	37039157	37039385	E067	-24963
chr17	37039455	37039505	E067	-24843
chr17	37039761	37040627	E067	-23721
chr17	37041243	37041333	E067	-23015
chr17	37041354	37043177	E067	-21171
chr17	37043197	37043481	E067	-20867
chr17	37048977	37049020	E067	-15328
chr17	37049148	37049201	E067	-15147
chr17	37049214	37049360	E067	-14988
chr17	37049442	37049625	E067	-14723
chr17	37049648	37049799	E067	-14549
chr17	37049818	37050319	E067	-14029
chr17	37050419	37050548	E067	-13800
chr17	37052612	37053117	E067	-11231
chr17	37053210	37055996	E067	-8352
chr17	37056806	37058168	E067	-6180
chr17	37069274	37069341	E067	4926
chr17	37077984	37078512	E067	13636
chr17	37078521	37079779	E067	14173
chr17	37079987	37080117	E067	15639
chr17	37029490	37029562	E068	-34786
chr17	37029667	37029749	E068	-34599
chr17	37029919	37030193	E068	-34155
chr17	37030264	37030550	E068	-33798
chr17	37030592	37030642	E068	-33706
chr17	37030673	37030746	E068	-33602
chr17	37030808	37030985	E068	-33363
chr17	37031087	37032408	E068	-31940
chr17	37033308	37033419	E068	-30929
chr17	37033426	37033640	E068	-30708
chr17	37033678	37034201	E068	-30147
chr17	37034277	37034390	E068	-29958
chr17	37034420	37034486	E068	-29862
chr17	37034501	37034576	E068	-29772
chr17	37035782	37037087	E068	-27261
chr17	37037149	37037206	E068	-27142
chr17	37037273	37037323	E068	-27025
chr17	37037402	37037547	E068	-26801
chr17	37037731	37038463	E068	-25885
chr17	37038492	37038548	E068	-25800
chr17	37038799	37038870	E068	-25478
chr17	37038911	37039071	E068	-25277
chr17	37039088	37039138	E068	-25210
chr17	37039157	37039385	E068	-24963
chr17	37039455	37039505	E068	-24843
chr17	37039761	37040627	E068	-23721
chr17	37040752	37040821	E068	-23527
chr17	37040844	37040942	E068	-23406
chr17	37040989	37041061	E068	-23287
chr17	37041243	37041333	E068	-23015
chr17	37041354	37043177	E068	-21171
chr17	37043197	37043481	E068	-20867
chr17	37048581	37048927	E068	-15421
chr17	37048977	37049020	E068	-15328
chr17	37049148	37049201	E068	-15147
chr17	37049214	37049360	E068	-14988
chr17	37049442	37049625	E068	-14723
chr17	37049648	37049799	E068	-14549
chr17	37049818	37050319	E068	-14029
chr17	37050419	37050548	E068	-13800
chr17	37052440	37052556	E068	-11792
chr17	37052612	37053117	E068	-11231
chr17	37053210	37055996	E068	-8352
chr17	37056806	37058168	E068	-6180
chr17	37062834	37063475	E068	-873
chr17	37063519	37063569	E068	-779
chr17	37068408	37068453	E068	4060
chr17	37068473	37069184	E068	4125
chr17	37069274	37069341	E068	4926
chr17	37076376	37076416	E068	12028
chr17	37076481	37076521	E068	12133
chr17	37076576	37076654	E068	12228
chr17	37076743	37076824	E068	12395
chr17	37076898	37076958	E068	12550
chr17	37077767	37077983	E068	13419
chr17	37077984	37078512	E068	13636
chr17	37078521	37079779	E068	14173
chr17	37082894	37083304	E068	18546
chr17	37029667	37029749	E069	-34599
chr17	37029919	37030193	E069	-34155
chr17	37030264	37030550	E069	-33798
chr17	37030592	37030642	E069	-33706
chr17	37030673	37030746	E069	-33602
chr17	37030808	37030985	E069	-33363
chr17	37031087	37032408	E069	-31940
chr17	37033308	37033419	E069	-30929
chr17	37033426	37033640	E069	-30708
chr17	37033678	37034201	E069	-30147
chr17	37034277	37034390	E069	-29958
chr17	37035782	37037087	E069	-27261
chr17	37037149	37037206	E069	-27142
chr17	37037273	37037323	E069	-27025
chr17	37037402	37037547	E069	-26801
chr17	37037731	37038463	E069	-25885
chr17	37038492	37038548	E069	-25800
chr17	37038799	37038870	E069	-25478
chr17	37038911	37039071	E069	-25277
chr17	37039088	37039138	E069	-25210
chr17	37039157	37039385	E069	-24963
chr17	37039455	37039505	E069	-24843
chr17	37039761	37040627	E069	-23721
chr17	37040752	37040821	E069	-23527
chr17	37040844	37040942	E069	-23406
chr17	37040989	37041061	E069	-23287
chr17	37041243	37041333	E069	-23015
chr17	37041354	37043177	E069	-21171
chr17	37043197	37043481	E069	-20867
chr17	37043558	37043665	E069	-20683
chr17	37043702	37043852	E069	-20496
chr17	37043923	37043982	E069	-20366
chr17	37044006	37044086	E069	-20262
chr17	37044096	37044146	E069	-20202
chr17	37049442	37049625	E069	-14723
chr17	37049648	37049799	E069	-14549
chr17	37049818	37050319	E069	-14029
chr17	37050419	37050548	E069	-13800
chr17	37050619	37050951	E069	-13397
chr17	37052440	37052556	E069	-11792
chr17	37052612	37053117	E069	-11231
chr17	37053210	37055996	E069	-8352
chr17	37062488	37062568	E069	-1780
chr17	37068473	37069184	E069	4125
chr17	37077984	37078512	E069	13636
chr17	37078521	37079779	E069	14173
chr17	37029490	37029562	E070	-34786
chr17	37029667	37029749	E070	-34599
chr17	37031087	37032408	E070	-31940
chr17	37033308	37033419	E070	-30929
chr17	37033426	37033640	E070	-30708
chr17	37033678	37034201	E070	-30147
chr17	37037402	37037547	E070	-26801
chr17	37037731	37038463	E070	-25885
chr17	37038492	37038548	E070	-25800
chr17	37038799	37038870	E070	-25478
chr17	37038911	37039071	E070	-25277
chr17	37039088	37039138	E070	-25210
chr17	37039157	37039385	E070	-24963
chr17	37039455	37039505	E070	-24843
chr17	37039761	37040627	E070	-23721
chr17	37040752	37040821	E070	-23527
chr17	37040844	37040942	E070	-23406
chr17	37040989	37041061	E070	-23287
chr17	37041243	37041333	E070	-23015
chr17	37041354	37043177	E070	-21171
chr17	37043197	37043481	E070	-20867
chr17	37043558	37043665	E070	-20683
chr17	37052039	37052091	E070	-12257
chr17	37078521	37079779	E070	14173
chr17	37029490	37029562	E071	-34786
chr17	37029667	37029749	E071	-34599
chr17	37029919	37030193	E071	-34155
chr17	37030264	37030550	E071	-33798
chr17	37030592	37030642	E071	-33706
chr17	37030673	37030746	E071	-33602
chr17	37030808	37030985	E071	-33363
chr17	37031087	37032408	E071	-31940
chr17	37033308	37033419	E071	-30929
chr17	37033426	37033640	E071	-30708
chr17	37033678	37034201	E071	-30147
chr17	37034277	37034390	E071	-29958
chr17	37035679	37035765	E071	-28583
chr17	37035782	37037087	E071	-27261
chr17	37037149	37037206	E071	-27142
chr17	37037273	37037323	E071	-27025
chr17	37037402	37037547	E071	-26801
chr17	37037731	37038463	E071	-25885
chr17	37038492	37038548	E071	-25800
chr17	37038799	37038870	E071	-25478
chr17	37038911	37039071	E071	-25277
chr17	37039088	37039138	E071	-25210
chr17	37039157	37039385	E071	-24963
chr17	37039455	37039505	E071	-24843
chr17	37039761	37040627	E071	-23721
chr17	37041243	37041333	E071	-23015
chr17	37041354	37043177	E071	-21171
chr17	37043197	37043481	E071	-20867
chr17	37043558	37043665	E071	-20683
chr17	37043702	37043852	E071	-20496
chr17	37049148	37049201	E071	-15147
chr17	37049214	37049360	E071	-14988
chr17	37049442	37049625	E071	-14723
chr17	37049648	37049799	E071	-14549
chr17	37049818	37050319	E071	-14029
chr17	37050419	37050548	E071	-13800
chr17	37050619	37050951	E071	-13397
chr17	37051958	37052027	E071	-12321
chr17	37052039	37052091	E071	-12257
chr17	37052152	37052206	E071	-12142
chr17	37052440	37052556	E071	-11792
chr17	37052612	37053117	E071	-11231
chr17	37053210	37055996	E071	-8352
chr17	37056488	37056597	E071	-7751
chr17	37056806	37058168	E071	-6180
chr17	37062834	37063475	E071	-873
chr17	37063519	37063569	E071	-779
chr17	37063574	37063801	E071	-547
chr17	37063881	37063998	E071	-350
chr17	37064017	37064067	E071	-281
chr17	37064612	37065498	E071	264
chr17	37078521	37079779	E071	14173
chr17	37079987	37080117	E071	15639
chr17	37080193	37080506	E071	15845
chr17	37082894	37083304	E071	18546
chr17	37083324	37083401	E071	18976
chr17	37029490	37029562	E072	-34786
chr17	37029667	37029749	E072	-34599
chr17	37029919	37030193	E072	-34155
chr17	37030264	37030550	E072	-33798
chr17	37030592	37030642	E072	-33706
chr17	37030673	37030746	E072	-33602
chr17	37030808	37030985	E072	-33363
chr17	37031087	37032408	E072	-31940
chr17	37033308	37033419	E072	-30929
chr17	37033426	37033640	E072	-30708
chr17	37033678	37034201	E072	-30147
chr17	37035782	37037087	E072	-27261
chr17	37037731	37038463	E072	-25885
chr17	37038492	37038548	E072	-25800
chr17	37038799	37038870	E072	-25478
chr17	37038911	37039071	E072	-25277
chr17	37039088	37039138	E072	-25210
chr17	37039157	37039385	E072	-24963
chr17	37039455	37039505	E072	-24843
chr17	37039761	37040627	E072	-23721
chr17	37040752	37040821	E072	-23527
chr17	37040844	37040942	E072	-23406
chr17	37040989	37041061	E072	-23287
chr17	37041243	37041333	E072	-23015
chr17	37041354	37043177	E072	-21171
chr17	37043197	37043481	E072	-20867
chr17	37049148	37049201	E072	-15147
chr17	37049214	37049360	E072	-14988
chr17	37049442	37049625	E072	-14723
chr17	37049648	37049799	E072	-14549
chr17	37049818	37050319	E072	-14029
chr17	37050419	37050548	E072	-13800
chr17	37050619	37050951	E072	-13397
chr17	37052612	37053117	E072	-11231
chr17	37053210	37055996	E072	-8352
chr17	37056806	37058168	E072	-6180
chr17	37062834	37063475	E072	-873
chr17	37063519	37063569	E072	-779
chr17	37063574	37063801	E072	-547
chr17	37063881	37063998	E072	-350
chr17	37064017	37064067	E072	-281
chr17	37064369	37064513	E072	21
chr17	37064530	37064602	E072	182
chr17	37064612	37065498	E072	264
chr17	37077984	37078512	E072	13636
chr17	37078521	37079779	E072	14173
chr17	37029490	37029562	E073	-34786
chr17	37029667	37029749	E073	-34599
chr17	37029919	37030193	E073	-34155
chr17	37030264	37030550	E073	-33798
chr17	37030592	37030642	E073	-33706
chr17	37030673	37030746	E073	-33602
chr17	37030808	37030985	E073	-33363
chr17	37031087	37032408	E073	-31940
chr17	37033308	37033419	E073	-30929
chr17	37033426	37033640	E073	-30708
chr17	37033678	37034201	E073	-30147
chr17	37034277	37034390	E073	-29958
chr17	37034420	37034486	E073	-29862
chr17	37034501	37034576	E073	-29772
chr17	37034651	37034849	E073	-29499
chr17	37034866	37034971	E073	-29377
chr17	37035061	37035158	E073	-29190
chr17	37035782	37037087	E073	-27261
chr17	37037402	37037547	E073	-26801
chr17	37037731	37038463	E073	-25885
chr17	37038492	37038548	E073	-25800
chr17	37038799	37038870	E073	-25478
chr17	37038911	37039071	E073	-25277
chr17	37039088	37039138	E073	-25210
chr17	37039157	37039385	E073	-24963
chr17	37039455	37039505	E073	-24843
chr17	37039761	37040627	E073	-23721
chr17	37040752	37040821	E073	-23527
chr17	37040844	37040942	E073	-23406
chr17	37040989	37041061	E073	-23287
chr17	37041243	37041333	E073	-23015
chr17	37043197	37043481	E073	-20867
chr17	37043558	37043665	E073	-20683
chr17	37043702	37043852	E073	-20496
chr17	37043923	37043982	E073	-20366
chr17	37044006	37044086	E073	-20262
chr17	37044096	37044146	E073	-20202
chr17	37044226	37044276	E073	-20072
chr17	37044365	37044405	E073	-19943
chr17	37044434	37044484	E073	-19864
chr17	37044486	37044602	E073	-19746
chr17	37044676	37044741	E073	-19607
chr17	37044808	37044910	E073	-19438
chr17	37044967	37045034	E073	-19314
chr17	37045177	37045284	E073	-19064
chr17	37046059	37046335	E073	-18013
chr17	37046385	37046471	E073	-17877
chr17	37046574	37046624	E073	-17724
chr17	37048327	37048570	E073	-15778
chr17	37048581	37048927	E073	-15421
chr17	37048977	37049020	E073	-15328
chr17	37049148	37049201	E073	-15147
chr17	37049214	37049360	E073	-14988
chr17	37049442	37049625	E073	-14723
chr17	37049648	37049799	E073	-14549
chr17	37049818	37050319	E073	-14029
chr17	37050419	37050548	E073	-13800
chr17	37050619	37050951	E073	-13397
chr17	37052440	37052556	E073	-11792
chr17	37052612	37053117	E073	-11231
chr17	37053210	37055996	E073	-8352
chr17	37056806	37058168	E073	-6180
chr17	37062834	37063475	E073	-873
chr17	37063519	37063569	E073	-779
chr17	37067417	37067697	E073	3069
chr17	37068473	37069184	E073	4125
chr17	37075652	37075702	E073	11304
chr17	37075739	37075779	E073	11391
chr17	37075802	37075888	E073	11454
chr17	37075940	37076317	E073	11592
chr17	37076376	37076416	E073	12028
chr17	37076481	37076521	E073	12133
chr17	37076576	37076654	E073	12228
chr17	37076743	37076824	E073	12395
chr17	37076898	37076958	E073	12550
chr17	37077001	37077057	E073	12653
chr17	37077160	37077715	E073	12812
chr17	37077767	37077983	E073	13419
chr17	37077984	37078512	E073	13636
chr17	37078521	37079779	E073	14173
chr17	37079987	37080117	E073	15639
chr17	37080193	37080506	E073	15845
chr17	37029667	37029749	E074	-34599
chr17	37029919	37030193	E074	-34155
chr17	37030264	37030550	E074	-33798
chr17	37030592	37030642	E074	-33706
chr17	37030673	37030746	E074	-33602
chr17	37030808	37030985	E074	-33363
chr17	37031087	37032408	E074	-31940
chr17	37033308	37033419	E074	-30929
chr17	37033426	37033640	E074	-30708
chr17	37033678	37034201	E074	-30147
chr17	37034277	37034390	E074	-29958
chr17	37034420	37034486	E074	-29862
chr17	37034501	37034576	E074	-29772
chr17	37035782	37037087	E074	-27261
chr17	37037149	37037206	E074	-27142
chr17	37037273	37037323	E074	-27025
chr17	37037402	37037547	E074	-26801
chr17	37037731	37038463	E074	-25885
chr17	37038492	37038548	E074	-25800
chr17	37038799	37038870	E074	-25478
chr17	37038911	37039071	E074	-25277
chr17	37039088	37039138	E074	-25210
chr17	37039157	37039385	E074	-24963
chr17	37039455	37039505	E074	-24843
chr17	37039761	37040627	E074	-23721
chr17	37041243	37041333	E074	-23015
chr17	37041354	37043177	E074	-21171
chr17	37049148	37049201	E074	-15147
chr17	37049214	37049360	E074	-14988
chr17	37049442	37049625	E074	-14723
chr17	37049648	37049799	E074	-14549
chr17	37049818	37050319	E074	-14029
chr17	37052612	37053117	E074	-11231
chr17	37053210	37055996	E074	-8352
chr17	37056806	37058168	E074	-6180
chr17	37078521	37079779	E074	14173
chr17	37029490	37029562	E081	-34786
chr17	37029667	37029749	E081	-34599
chr17	37029919	37030193	E081	-34155
chr17	37030264	37030550	E081	-33798
chr17	37030592	37030642	E081	-33706
chr17	37030673	37030746	E081	-33602
chr17	37030808	37030985	E081	-33363
chr17	37031087	37032408	E081	-31940
chr17	37033308	37033419	E081	-30929
chr17	37033426	37033640	E081	-30708
chr17	37033678	37034201	E081	-30147
chr17	37037402	37037547	E081	-26801
chr17	37037731	37038463	E081	-25885
chr17	37038492	37038548	E081	-25800
chr17	37038911	37039071	E081	-25277
chr17	37039088	37039138	E081	-25210
chr17	37039157	37039385	E081	-24963
chr17	37039455	37039505	E081	-24843
chr17	37039761	37040627	E081	-23721
chr17	37040752	37040821	E081	-23527
chr17	37040844	37040942	E081	-23406
chr17	37040989	37041061	E081	-23287
chr17	37041243	37041333	E081	-23015
chr17	37041354	37043177	E081	-21171
chr17	37043197	37043481	E081	-20867
chr17	37043558	37043665	E081	-20683
chr17	37052440	37052556	E081	-11792
chr17	37052612	37053117	E081	-11231
chr17	37068473	37069184	E081	4125
chr17	37078521	37079779	E081	14173
chr17	37082524	37082607	E081	18176
chr17	37082628	37082889	E081	18280
chr17	37082894	37083304	E081	18546
chr17	37083324	37083401	E081	18976
chr17	37033308	37033419	E082	-30929
chr17	37033426	37033640	E082	-30708
chr17	37035782	37037087	E082	-27261
chr17	37037149	37037206	E082	-27142
chr17	37037273	37037323	E082	-27025
chr17	37037402	37037547	E082	-26801
chr17	37037731	37038463	E082	-25885
chr17	37038492	37038548	E082	-25800
chr17	37038799	37038870	E082	-25478
chr17	37038911	37039071	E082	-25277
chr17	37039088	37039138	E082	-25210
chr17	37039157	37039385	E082	-24963
chr17	37039455	37039505	E082	-24843
chr17	37039761	37040627	E082	-23721
chr17	37041243	37041333	E082	-23015
chr17	37043197	37043481	E082	-20867
chr17	37043558	37043665	E082	-20683
chr17	37043702	37043852	E082	-20496
chr17	37068473	37069184	E082	4125
chr17	37069274	37069341	E082	4926
chr17	37078521	37079779	E082	14173

Promoter Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr17	37023495	37029420	E067	-34928
chr17	37023259	37023460	E068	-40888
chr17	37023495	37029420	E068	-34928
chr17	37023495	37029420	E069	-34928
chr17	37023495	37029420	E070	-34928
chr17	37023495	37029420	E071	-34928
chr17	37023495	37029420	E072	-34928
chr17	37023495	37029420	E073	-34928
chr17	37023495	37029420	E074	-34928
chr17	37023495	37029420	E081	-34928
chr17	37023495	37029420	E082	-34928