rs7701805

Organism: Homo sapiens

Alleles: T>A / T>C

Gene : Feature

RANBP17 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

T==0322 (9656/29900,GnomAD)
T==0312 (9100/29118,TOPMED)
T==0255 (1275/5008,1000G)

Position: chr5:170942597 (GRCh38.p7) (5q35.1)

Phenotype: ND

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 164 Enhancers around

Promoter: 74 Promoters around

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 5	NC_000005.10:g.170942597T>A
GRCh38.p7 chr 5	NC_000005.10:g.170942597T>C
GRCh37.p13 chr 5	NC_000005.9:g.170369601T>A
GRCh37.p13 chr 5	NC_000005.9:g.170369601T>C

Gene: RANBP17, RAN binding protein 17(plus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
RANBP17 transcript	NM_022897.4:c.	N/A	Intron Variant
RANBP17 transcript variant X1	XM_011534627.1:c.	N/A	Intron Variant
RANBP17 transcript variant X5	XM_011534631.2:c.	N/A	Intron Variant
RANBP17 transcript variant X12	XM_011534636.2:c.	N/A	Intron Variant
RANBP17 transcript variant X15	XM_011534637.2:c.	N/A	Intron Variant
RANBP17 transcript variant X2	XM_017009736.1:c.	N/A	Intron Variant
RANBP17 transcript variant X3	XM_017009737.1:c.	N/A	Intron Variant
RANBP17 transcript variant X3	XM_017009738.1:c.	N/A	Intron Variant
RANBP17 transcript variant X4	XM_017009739.1:c.	N/A	Intron Variant
RANBP17 transcript variant X5	XM_017009740.1:c.	N/A	Intron Variant
RANBP17 transcript variant X8	XM_017009741.1:c.	N/A	Intron Variant
RANBP17 transcript variant X9	XM_017009742.1:c.	N/A	Intron Variant
RANBP17 transcript variant X8	XM_017009743.1:c.	N/A	Intron Variant
RANBP17 transcript variant X10	XM_017009744.1:c.	N/A	Intron Variant
RANBP17 transcript variant X11	XM_017009745.1:c.	N/A	Intron Variant
RANBP17 transcript variant X15	XM_017009746.1:c.	N/A	Intron Variant
RANBP17 transcript variant X16	XM_017009747.1:c.	N/A	Genic Upstream Transcript Variant
RANBP17 transcript variant X9	XR_001742202.1:n.	N/A	Intron Variant
RANBP17 transcript variant X14	XR_941108.2:n.	N/A	Intron Variant

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	T=0.327	C=0.673
1000Genomes	American	Sub	694	T=0.320	C=0.680
1000Genomes	East Asian	Sub	1008	T=0.219	C=0.781
1000Genomes	Europe	Sub	1006	T=0.314	C=0.686
1000Genomes	Global	Study-wide	5008	T=0.255	C=0.745
1000Genomes	South Asian	Sub	978	T=0.080	C=0.920
The Genome Aggregation Database	African	Sub	8694	T=0.334	C=0.666
The Genome Aggregation Database	American	Sub	836	T=0.310	C=0.690
The Genome Aggregation Database	East Asian	Sub	1612	T=0.233	C=0.767
The Genome Aggregation Database	Europe	Sub	18456	T=0.326	C=0.673
The Genome Aggregation Database	Global	Study-wide	29900	T=0.322	C=0.677
The Genome Aggregation Database	Other	Sub	302	T=0.330	C=0.670
Trans-Omics for Precision Medicine	Global	Study-wide	29118	T=0.312	C=0.687

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
rs7701805	4.95E-06	alcohol and nictotine co-dependence	20158304

eQTL of rs7701805 in Brain tissues (GTEx Analysis Release V7)

Position (v37)	eGene	GeneID	Variant	p-value	TSS	Tissue
Chr5:170369601	RANBP17	ENSG00000204764.8	T>C	6.7482e-3	80727	Cerebellar_Hemisphere
Chr5:170369601	RANBP17	ENSG00000204764.8	T>C	6.1844e-8	80727	Caudate_basal_ganglia

meQTL of rs7701805 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 )
chr5	1505803	1505931	E067	-44378
chr5	1505962	1506194	E067	-44115
chr5	1506199	1506361	E067	-43948
chr5	1521751	1521931	E067	-28378
chr5	1522022	1522072	E067	-28237
chr5	1553521	1553583	E067	3212
chr5	1501153	1501216	E068	-49093
chr5	1504404	1504566	E068	-45743
chr5	1505568	1505634	E068	-44675
chr5	1505803	1505931	E068	-44378
chr5	1505962	1506194	E068	-44115
chr5	1506199	1506361	E068	-43948
chr5	1506544	1506905	E068	-43404
chr5	1507086	1507152	E068	-43157
chr5	1522022	1522072	E068	-28237
chr5	1524950	1525027	E068	-25282
chr5	1551811	1552414	E068	1502
chr5	1553521	1553583	E068	3212
chr5	1553740	1553805	E068	3431
chr5	1505803	1505931	E069	-44378
chr5	1506544	1506905	E069	-43404
chr5	1507086	1507152	E069	-43157
chr5	1521639	1521708	E069	-28601
chr5	1521751	1521931	E069	-28378
chr5	1524950	1525027	E069	-25282
chr5	1552604	1553389	E069	2295
chr5	1553521	1553583	E069	3212
chr5	1553740	1553805	E069	3431
chr5	1500401	1500529	E070	-49780
chr5	1500595	1500862	E070	-49447
chr5	1501153	1501216	E070	-49093
chr5	1501485	1501590	E070	-48719
chr5	1503318	1504290	E070	-46019
chr5	1505568	1505634	E070	-44675
chr5	1505803	1505931	E070	-44378
chr5	1505962	1506194	E070	-44115
chr5	1506199	1506361	E070	-43948
chr5	1506544	1506905	E070	-43404
chr5	1507086	1507152	E070	-43157
chr5	1507749	1507897	E070	-42412
chr5	1508739	1508807	E070	-41502
chr5	1514480	1515267	E070	-35042
chr5	1515402	1515806	E070	-34503
chr5	1524950	1525027	E070	-25282
chr5	1525051	1525121	E070	-25188
chr5	1553740	1553805	E070	3431
chr5	1553913	1553993	E070	3604
chr5	1554146	1554214	E070	3837
chr5	1500595	1500862	E071	-49447
chr5	1501153	1501216	E071	-49093
chr5	1505568	1505634	E071	-44675
chr5	1505803	1505931	E071	-44378
chr5	1505962	1506194	E071	-44115
chr5	1506199	1506361	E071	-43948
chr5	1506544	1506905	E071	-43404
chr5	1507086	1507152	E071	-43157
chr5	1522022	1522072	E071	-28237
chr5	1541819	1542570	E071	-7739
chr5	1544227	1544358	E071	-5951
chr5	1553521	1553583	E071	3212
chr5	1553740	1553805	E071	3431
chr5	1553913	1553993	E071	3604
chr5	1568201	1568278	E071	17892
chr5	1568286	1569068	E071	17977
chr5	1505568	1505634	E072	-44675
chr5	1505803	1505931	E072	-44378
chr5	1505962	1506194	E072	-44115
chr5	1506199	1506361	E072	-43948
chr5	1521751	1521931	E072	-28378
chr5	1522022	1522072	E072	-28237
chr5	1553521	1553583	E072	3212
chr5	1505568	1505634	E073	-44675
chr5	1505803	1505931	E073	-44378
chr5	1505962	1506194	E073	-44115
chr5	1506199	1506361	E073	-43948
chr5	1509289	1509339	E073	-40970
chr5	1516133	1517015	E073	-33294
chr5	1522022	1522072	E073	-28237
chr5	1548427	1548571	E073	-1738
chr5	1553521	1553583	E073	3212
chr5	1553740	1553805	E073	3431
chr5	1553913	1553993	E073	3604
chr5	1566118	1566193	E073	15809
chr5	1566604	1566664	E073	16295
chr5	1568201	1568278	E073	17892
chr5	1568286	1569068	E073	17977
chr5	1502757	1503276	E074	-47033
chr5	1503318	1504290	E074	-46019
chr5	1506544	1506905	E074	-43404
chr5	1507086	1507152	E074	-43157
chr5	1553521	1553583	E074	3212
chr5	1553740	1553805	E074	3431
chr5	1500401	1500529	E081	-49780
chr5	1500595	1500862	E081	-49447
chr5	1501153	1501216	E081	-49093
chr5	1505568	1505634	E081	-44675
chr5	1505803	1505931	E081	-44378
chr5	1505962	1506194	E081	-44115
chr5	1506199	1506361	E081	-43948
chr5	1506544	1506905	E081	-43404
chr5	1507086	1507152	E081	-43157
chr5	1514480	1515267	E081	-35042
chr5	1515402	1515806	E081	-34503
chr5	1515907	1516042	E081	-34267
chr5	1521751	1521931	E081	-28378
chr5	1522022	1522072	E081	-28237
chr5	1524950	1525027	E081	-25282
chr5	1540972	1541033	E081	-9276
chr5	1541407	1541559	E081	-8750
chr5	1541819	1542570	E081	-7739
chr5	1542916	1543215	E081	-7094
chr5	1545091	1545444	E081	-4865
chr5	1545568	1545639	E081	-4670
chr5	1545892	1546339	E081	-3970
chr5	1546400	1546650	E081	-3659
chr5	1546723	1546863	E081	-3446
chr5	1547139	1547228	E081	-3081
chr5	1548427	1548571	E081	-1738
chr5	1550393	1550464	E081	84
chr5	1551811	1552414	E081	1502
chr5	1552604	1553389	E081	2295
chr5	1553521	1553583	E081	3212
chr5	1553740	1553805	E081	3431
chr5	1553913	1553993	E081	3604
chr5	1554146	1554214	E081	3837
chr5	1554849	1554947	E081	4540
chr5	1555093	1555327	E081	4784
chr5	1555421	1555844	E081	5112
chr5	1500595	1500862	E082	-49447
chr5	1501153	1501216	E082	-49093
chr5	1505568	1505634	E082	-44675
chr5	1505803	1505931	E082	-44378
chr5	1505962	1506194	E082	-44115
chr5	1506199	1506361	E082	-43948
chr5	1506544	1506905	E082	-43404
chr5	1507086	1507152	E082	-43157
chr5	1507749	1507897	E082	-42412
chr5	1514480	1515267	E082	-35042
chr5	1515402	1515806	E082	-34503
chr5	1515907	1516042	E082	-34267
chr5	1516133	1517015	E082	-33294
chr5	1517027	1517579	E082	-32730
chr5	1521010	1521471	E082	-28838
chr5	1521639	1521708	E082	-28601
chr5	1521751	1521931	E082	-28378
chr5	1524950	1525027	E082	-25282
chr5	1525051	1525121	E082	-25188
chr5	1540164	1540229	E082	-10080
chr5	1540378	1540532	E082	-9777
chr5	1540794	1540844	E082	-9465
chr5	1540972	1541033	E082	-9276
chr5	1541407	1541559	E082	-8750
chr5	1541819	1542570	E082	-7739
chr5	1545568	1545639	E082	-4670
chr5	1545671	1545776	E082	-4533
chr5	1549467	1549637	E082	-672
chr5	1550393	1550464	E082	84
chr5	1553521	1553583	E082	3212
chr5	1553740	1553805	E082	3431
chr5	1553913	1553993	E082	3604
chr5	1554146	1554214	E082	3837
chr5	1554849	1554947	E082	4540
chr5	1555093	1555327	E082	4784
chr5	1555421	1555844	E082	5112

Promoter Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr5	1522929	1523014	E067	-27295
chr5	1523086	1523207	E067	-27102
chr5	1523281	1523489	E067	-26820
chr5	1523596	1524945	E067	-25364
chr5	1594045	1594496	E067	43736
chr5	1594501	1595035	E067	44192
chr5	1595093	1595192	E067	44784
chr5	1522929	1523014	E068	-27295
chr5	1523086	1523207	E068	-27102
chr5	1523281	1523489	E068	-26820
chr5	1523596	1524945	E068	-25364
chr5	1594045	1594496	E068	43736
chr5	1594501	1595035	E068	44192
chr5	1595093	1595192	E068	44784
chr5	1597337	1597439	E068	47028
chr5	1522929	1523014	E069	-27295
chr5	1523086	1523207	E069	-27102
chr5	1523281	1523489	E069	-26820
chr5	1523596	1524945	E069	-25364
chr5	1594045	1594496	E069	43736
chr5	1595093	1595192	E069	44784
chr5	1522929	1523014	E070	-27295
chr5	1523086	1523207	E070	-27102
chr5	1523281	1523489	E070	-26820
chr5	1523596	1524945	E070	-25364
chr5	1593467	1593592	E070	43158
chr5	1593728	1593806	E070	43419
chr5	1594045	1594496	E070	43736
chr5	1594501	1595035	E070	44192
chr5	1595093	1595192	E070	44784
chr5	1597337	1597439	E070	47028
chr5	1522929	1523014	E071	-27295
chr5	1523086	1523207	E071	-27102
chr5	1523281	1523489	E071	-26820
chr5	1523596	1524945	E071	-25364
chr5	1594045	1594496	E071	43736
chr5	1594501	1595035	E071	44192
chr5	1595093	1595192	E071	44784
chr5	1597337	1597439	E071	47028
chr5	1522929	1523014	E072	-27295
chr5	1523086	1523207	E072	-27102
chr5	1523281	1523489	E072	-26820
chr5	1523596	1524945	E072	-25364
chr5	1593728	1593806	E072	43419
chr5	1594045	1594496	E072	43736
chr5	1594501	1595035	E072	44192
chr5	1595093	1595192	E072	44784
chr5	1597337	1597439	E072	47028
chr5	1522929	1523014	E073	-27295
chr5	1523086	1523207	E073	-27102
chr5	1523281	1523489	E073	-26820
chr5	1523596	1524945	E073	-25364
chr5	1594045	1594496	E073	43736
chr5	1594501	1595035	E073	44192
chr5	1595093	1595192	E073	44784
chr5	1597337	1597439	E073	47028
chr5	1522929	1523014	E074	-27295
chr5	1523086	1523207	E074	-27102
chr5	1523281	1523489	E074	-26820
chr5	1523596	1524945	E074	-25364
chr5	1594045	1594496	E074	43736
chr5	1594501	1595035	E074	44192
chr5	1597337	1597439	E074	47028
chr5	1522929	1523014	E081	-27295
chr5	1523086	1523207	E081	-27102
chr5	1522929	1523014	E082	-27295
chr5	1523086	1523207	E082	-27102
chr5	1523281	1523489	E082	-26820
chr5	1523596	1524945	E082	-25364
chr5	1593728	1593806	E082	43419
chr5	1594045	1594496	E082	43736
chr5	1594501	1595035	E082	44192
chr5	1595093	1595192	E082	44784
chr5	1597337	1597439	E082	47028