rs2155235

Homo sapiens
C>T
NCALD : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0110 (3310/29938,GnomAD)
T=0123 (3582/29118,TOPMED)
T=0072 (363/5008,1000G)
T=0111 (429/3854,ALSPAC)
T=0115 (428/3708,TWINSUK)
chr8:102055399 (GRCh38.p7) (8q22.3)
ND
GWASdb2
1   publication(s)
See rs on genome
99 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 8NC_000008.11:g.102055399C>T
GRCh37.p13 chr 8NC_000008.10:g.103067627C>T

Gene: NCALD, neurocalcin delta(minus strand)

Molecule type Change Amino acid[Codon] SO Term
NCALD transcript variant 1NM_001040624.1:c.N/AIntron Variant
NCALD transcript variant 2NM_001040625.1:c.N/AIntron Variant
NCALD transcript variant 3NM_001040626.1:c.N/AIntron Variant
NCALD transcript variant 4NM_001040627.1:c.N/AIntron Variant
NCALD transcript variant 5NM_001040628.1:c.N/AIntron Variant
NCALD transcript variant 6NM_001040629.1:c.N/AIntron Variant
NCALD transcript variant 7NM_001040630.1:c.N/AIntron Variant
NCALD transcript variant 8NM_032041.2:c.N/AGenic Upstream Transcript Variant
NCALD transcript variant X5XM_011517333.2:c.N/AIntron Variant
NCALD transcript variant X1XM_017013900.1:c.N/AIntron Variant
NCALD transcript variant X4XM_017013901.1:c.N/AIntron Variant
NCALD transcript variant X7XM_011517332.2:c.N/AGenic Upstream Transcript Variant
NCALD transcript variant X12XM_011517334.2:c.N/AGenic Upstream Transcript Variant
NCALD transcript variant X13XM_011517335.2:c.N/AGenic Upstream Transcript Variant
NCALD transcript variant X4XM_017013902.1:c.N/AGenic Upstream Transcript Variant
NCALD transcript variant X16XR_001745607.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.871T=0.129
1000GenomesAmericanSub694C=0.940T=0.060
1000GenomesEast AsianSub1008C=1.000T=0.000
1000GenomesEuropeSub1006C=0.870T=0.130
1000GenomesGlobalStudy-wide5008C=0.928T=0.072
1000GenomesSouth AsianSub978C=0.980T=0.020
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.889T=0.111
The Genome Aggregation DatabaseAfricanSub8710C=0.888T=0.112
The Genome Aggregation DatabaseAmericanSub838C=0.910T=0.090
The Genome Aggregation DatabaseEast AsianSub1622C=0.999T=0.001
The Genome Aggregation DatabaseEuropeSub18466C=0.880T=0.119
The Genome Aggregation DatabaseGlobalStudy-wide29938C=0.889T=0.110
The Genome Aggregation DatabaseOtherSub302C=0.820T=0.180
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.877T=0.123
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.885T=0.115
PMID Title Author Journal
20158304A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.Lind PATwin Res Hum Genet

P-Value

SNP ID p-value Traits Study
rs21552352.1E-05alcohol and nictotine co-dependence20158304

eQTL of rs2155235 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 rs2155235 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 )
chr8103050164103051121E067-16506
chr8103076194103076784E0678567
chr8103076797103076869E0679170
chr8103050164103051121E068-16506
chr8103075777103076100E0698150
chr8103076194103076784E0698567
chr8103076797103076869E0699170
chr8103050164103051121E070-16506
chr8103051163103051294E070-16333
chr8103075777103076100E0718150
chr8103050164103051121E072-16506
chr8103072649103072734E0725022
chr8103076194103076784E0728567
chr8103050164103051121E073-16506
chr8103075268103075730E0737641
chr8103075777103076100E0738150
chr8103076194103076784E0738567
chr8103076797103076869E0739170
chr8103077059103077124E0739432
chr8103077129103077190E0739502
chr8103107083103107215E07339456
chr8103107283103107462E07339656
chr8103107742103108168E07340115
chr8103050164103051121E081-16506
chr8103051163103051294E081-16333
chr8103051305103051375E081-16252
chr8103056021103056161E081-11466
chr8103063804103064093E081-3534
chr8103064176103064352E081-3275
chr8103064450103064494E081-3133
chr8103064804103066661E081-966
chr8103067373103067451E081-176
chr8103067522103067566E081-61
chr8103072514103072602E0814887
chr8103072649103072734E0815022
chr8103072750103074375E0815123
chr8103074420103074552E0816793
chr8103074702103074933E0817075
chr8103074942103075129E0817315
chr8103075268103075730E0817641
chr8103075777103076100E0818150
chr8103076194103076784E0818567
chr8103076797103076869E0819170
chr8103077059103077124E0819432
chr8103077129103077190E0819502
chr8103077285103077896E0819658
chr8103082607103082703E08114980
chr8103082768103082908E08115141
chr8103082934103083486E08115307
chr8103083580103083657E08115953
chr8103083878103083963E08116251
chr8103091448103091617E08123821
chr8103091620103091706E08123993
chr8103091816103092163E08124189
chr8103092179103092276E08124552
chr8103092357103092933E08124730
chr8103112655103112935E08145028
chr8103113074103113124E08145447
chr8103113138103113178E08145511
chr8103113313103113600E08145686
chr8103114481103115112E08146854
chr8103115152103115314E08147525
chr8103115374103115424E08147747
chr8103115455103115505E08147828
chr8103115584103115634E08147957
chr8103115830103115931E08148203
chr8103116039103116146E08148412
chr8103116147103116187E08148520
chr8103116269103116353E08148642
chr8103050164103051121E082-16506
chr8103051163103051294E082-16333
chr8103051305103051375E082-16252
chr8103051849103051893E082-15734
chr8103051930103051974E082-15653
chr8103063028103063377E082-4250
chr8103063419103063583E082-4044
chr8103063804103064093E082-3534
chr8103064176103064352E082-3275
chr8103064450103064494E082-3133
chr8103064804103066661E082-966
chr8103072514103072602E0824887
chr8103072649103072734E0825022
chr8103072750103074375E0825123
chr8103075777103076100E0828150
chr8103076194103076784E0828567
chr8103076797103076869E0829170
chr8103082607103082703E08214980
chr8103082768103082908E08215141
chr8103082934103083486E08215307
chr8103083580103083657E08215953
chr8103091448103091617E08223821
chr8103091620103091706E08223993
chr8103091816103092163E08224189
chr8103092179103092276E08224552
chr8103092357103092933E08224730
chr8103092944103093012E08225317
chr8103093109103093176E08225482
chr8103093206103093286E08225579
chr8103113654103113900E08246027