Sequence Name | Change(s) |
---|---|
GRCh38.p7 chr 15 | NC_000015.10:g.91017952C>T |
GRCh37.p13 chr 15 | NC_000015.9:g.91561182C>T |
VPS33B RefSeqGene | LRG_884 |
Molecule type | Change | Amino acid[Codon] | SO Term |
---|---|---|---|
VPS33B transcript variant 2 | NM_001289148.1:c. | N/A | Intron Variant |
VPS33B transcript variant 3 | NM_001289149.1:c. | N/A | Intron Variant |
VPS33B transcript variant 1 | NM_018668.4:c. | N/A | Intron Variant |
VPS33B transcript variant X2 | XM_005254887.1:c. | N/A | Intron Variant |
VPS33B transcript variant X1 | XM_011521448.1:c. | N/A | Intron Variant |
VPS33B transcript variant X4 | XM_017022075.1:c. | N/A | Intron Variant |
VPS33B transcript variant X5 | XM_017022076.1:c. | N/A | Intron Variant |
VPS33B transcript variant X3 | XM_011521449.2:c. | N/A | Genic Upstream Transcript Variant |
VPS33B transcript variant X6 | XR_001751213.1:n. | N/A | Intron Variant |
Study | Population | Group | Sample # | Ref Allele | Alt Allele |
---|---|---|---|---|---|
1000Genomes | African | Sub | 1322 | C=0.820 | T=0.180 |
1000Genomes | American | Sub | 694 | C=0.750 | T=0.250 |
1000Genomes | East Asian | Sub | 1008 | C=0.462 | T=0.538 |
1000Genomes | Europe | Sub | 1006 | C=0.869 | T=0.131 |
1000Genomes | Global | Study-wide | 5008 | C=0.739 | T=0.261 |
1000Genomes | South Asian | Sub | 978 | C=0.780 | T=0.220 |
The Avon Longitudinal Study of Parents and Children | PARENT AND CHILD COHORT | Study-wide | 3854 | C=0.881 | T=0.119 |
The Genome Aggregation Database | African | Sub | 8722 | C=0.820 | T=0.180 |
The Genome Aggregation Database | American | Sub | 836 | C=0.720 | T=0.280 |
The Genome Aggregation Database | East Asian | Sub | 1618 | C=0.470 | T=0.530 |
The Genome Aggregation Database | Europe | Sub | 18496 | C=0.870 | T=0.130 |
The Genome Aggregation Database | Global | Study-wide | 29974 | C=0.829 | T=0.170 |
The Genome Aggregation Database | Other | Sub | 302 | C=0.870 | T=0.130 |
Trans-Omics for Precision Medicine | Global | Study-wide | 29118 | C=0.842 | T=0.157 |
UK 10K study - Twins | TWIN COHORT | Study-wide | 3708 | C=0.889 | T=0.111 |
PMID | Title | Author | Journal |
---|---|---|---|
20201924 | Genome-wide association study of alcohol dependence implicates a region on chromosome 11. | Edenberg HJ | Alcohol Clin Exp Res |
SNP ID | p-value | Traits | Study |
---|---|---|---|
rs3743445 | 0.00036 | alcohol dependence | 20201924 |
Position (v37) | eGene | GeneID | Variant | p-value | TSS | Tissue |
---|---|---|---|---|---|---|
Chr15:91561182 | MAN2A2 | ENSG00000196547.10 | C>T | 1.7425e-18 | 115734 | Cerebellum |
Chr15:91561182 | RCCD1 | ENSG00000166965.8 | C>T | 1.6411e-16 | 62156 | Cerebellum |
Chr15:91561182 | PRC1-AS1 | ENSG00000258725.1 | C>T | 2.3706e-8 | 45092 | Cerebellum |
Chr15:91561182 | RCCD1 | ENSG00000166965.8 | C>T | 1.3466e-14 | 62156 | Frontal_Cortex_BA9 |
Chr15:91561182 | RCCD1 | ENSG00000166965.8 | C>T | 4.4186e-13 | 62156 | Cortex |
Chr15:91561182 | RCCD1 | ENSG00000166965.8 | C>T | 4.8876e-18 | 62156 | Cerebellar_Hemisphere |
Chr15:91561182 | PRC1-AS1 | ENSG00000258725.1 | C>T | 1.4168e-5 | 45092 | Cerebellar_Hemisphere |
Chr15:91561182 | RCCD1 | ENSG00000166965.8 | C>T | 3.4773e-14 | 62156 | Caudate_basal_ganglia |
Chr15:91561182 | RCCD1 | ENSG00000166965.8 | C>T | 3.8776e-9 | 62156 | Anterior_cingulate_cortex |
Chr15:91561182 | RCCD1 | ENSG00000166965.8 | C>T | 3.7564e-16 | 62156 | Nucleus_accumbens_basal_ganglia |
Probe ID | Position | Gene | beta | p-value | |||
---|---|---|---|---|---|---|---|
There is no meQTL annotation for this SNP |
There is no significant Hi-C chromatin interaction data for this SNP.
Chromosome | Start | End | Region | Distance ( -/+ : Up/Downstream ) |
---|---|---|---|---|
chr15 | 91561243 | 91561315 | E067 | 61 |
chr15 | 91561487 | 91561541 | E067 | 305 |
chr15 | 91564376 | 91564486 | E068 | 3194 |
chr15 | 91592778 | 91593536 | E068 | 31596 |
chr15 | 91560914 | 91561212 | E069 | 0 |
chr15 | 91561243 | 91561315 | E069 | 61 |
chr15 | 91531522 | 91532011 | E070 | -29171 |
chr15 | 91532014 | 91532165 | E070 | -29017 |
chr15 | 91534892 | 91535160 | E070 | -26022 |
chr15 | 91535185 | 91535307 | E070 | -25875 |
chr15 | 91535321 | 91535405 | E070 | -25777 |
chr15 | 91535506 | 91535616 | E070 | -25566 |
chr15 | 91561487 | 91561541 | E070 | 305 |
chr15 | 91561566 | 91561646 | E070 | 384 |
chr15 | 91561691 | 91561763 | E070 | 509 |
chr15 | 91563737 | 91563860 | E070 | 2555 |
chr15 | 91564270 | 91564320 | E070 | 3088 |
chr15 | 91564376 | 91564486 | E070 | 3194 |
chr15 | 91560914 | 91561212 | E071 | 0 |
chr15 | 91561243 | 91561315 | E071 | 61 |
chr15 | 91561487 | 91561541 | E071 | 305 |
chr15 | 91561566 | 91561646 | E071 | 384 |
chr15 | 91561691 | 91561763 | E071 | 509 |
chr15 | 91561243 | 91561315 | E072 | 61 |
chr15 | 91561487 | 91561541 | E072 | 305 |
chr15 | 91561566 | 91561646 | E072 | 384 |
chr15 | 91561691 | 91561763 | E072 | 509 |
chr15 | 91561830 | 91561884 | E072 | 648 |
chr15 | 91561895 | 91561935 | E072 | 713 |
chr15 | 91563737 | 91563860 | E072 | 2555 |
chr15 | 91564270 | 91564320 | E072 | 3088 |
chr15 | 91564376 | 91564486 | E072 | 3194 |
chr15 | 91598908 | 91599032 | E072 | 37726 |
chr15 | 91607171 | 91607211 | E072 | 45989 |
chr15 | 91563737 | 91563860 | E074 | 2555 |
chr15 | 91564270 | 91564320 | E074 | 3088 |
chr15 | 91564376 | 91564486 | E074 | 3194 |
chr15 | 91564270 | 91564320 | E081 | 3088 |
chr15 | 91564376 | 91564486 | E081 | 3194 |
chr15 | 91562753 | 91562809 | E082 | 1571 |
chr15 | 91564270 | 91564320 | E082 | 3088 |
Chromosome | Start | End | Region | Distance(-/+:Up/Downstream) |
---|---|---|---|---|
chr15 | 91536348 | 91539047 | E067 | -22135 |
chr15 | 91564795 | 91566467 | E067 | 3613 |
chr15 | 91599095 | 91599563 | E067 | 37913 |
chr15 | 91599570 | 91599655 | E067 | 38388 |
chr15 | 91536348 | 91539047 | E068 | -22135 |
chr15 | 91564795 | 91566467 | E068 | 3613 |
chr15 | 91599095 | 91599563 | E068 | 37913 |
chr15 | 91599570 | 91599655 | E068 | 38388 |
chr15 | 91536348 | 91539047 | E069 | -22135 |
chr15 | 91564795 | 91566467 | E069 | 3613 |
chr15 | 91599095 | 91599563 | E069 | 37913 |
chr15 | 91599570 | 91599655 | E069 | 38388 |
chr15 | 91535873 | 91536278 | E070 | -24904 |
chr15 | 91536348 | 91539047 | E070 | -22135 |
chr15 | 91539072 | 91539143 | E070 | -22039 |
chr15 | 91564795 | 91566467 | E070 | 3613 |
chr15 | 91536348 | 91539047 | E071 | -22135 |
chr15 | 91564795 | 91566467 | E071 | 3613 |
chr15 | 91599095 | 91599563 | E071 | 37913 |
chr15 | 91599570 | 91599655 | E071 | 38388 |
chr15 | 91536348 | 91539047 | E072 | -22135 |
chr15 | 91564795 | 91566467 | E072 | 3613 |
chr15 | 91599095 | 91599563 | E072 | 37913 |
chr15 | 91599570 | 91599655 | E072 | 38388 |
chr15 | 91536348 | 91539047 | E073 | -22135 |
chr15 | 91564795 | 91566467 | E073 | 3613 |
chr15 | 91599095 | 91599563 | E073 | 37913 |
chr15 | 91599570 | 91599655 | E073 | 38388 |
chr15 | 91536348 | 91539047 | E074 | -22135 |
chr15 | 91564795 | 91566467 | E074 | 3613 |
chr15 | 91599095 | 91599563 | E074 | 37913 |
chr15 | 91536348 | 91539047 | E081 | -22135 |
chr15 | 91564795 | 91566467 | E081 | 3613 |
chr15 | 91535873 | 91536278 | E082 | -24904 |
chr15 | 91536348 | 91539047 | E082 | -22135 |
chr15 | 91564795 | 91566467 | E082 | 3613 |