Variant report

Variant	rs10784514
Chromosome Location	chr12:66452879-66452880
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10784513	0.87[ASN][1000 genomes]
rs10878367	0.85[ASN][1000 genomes]
rs10878369	0.88[ASN][1000 genomes]
rs10878370	0.88[ASN][1000 genomes]
rs11176015	0.88[ASN][1000 genomes]
rs11176016	0.88[ASN][1000 genomes]
rs11176017	0.90[ASN][1000 genomes]
rs11176018	0.97[ASN][1000 genomes]
rs11176019	0.93[ASN][1000 genomes]
rs11836463	0.82[CHB][hapmap]
rs12230818	0.88[ASN][1000 genomes]
rs12231215	0.90[ASN][1000 genomes]
rs4130827	0.91[CHB][hapmap];0.92[CHD][hapmap];0.81[GIH][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs6581661	0.87[ASN][1000 genomes]
rs6581662	0.87[ASN][1000 genomes]
rs7294563	0.91[CHB][hapmap];0.92[CHD][hapmap];0.86[GIH][hapmap];0.85[JPT][hapmap];0.91[MEX][hapmap];0.85[TSI][hapmap];0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7397918	0.91[CHB][hapmap];0.87[CHD][hapmap];0.86[GIH][hapmap];0.85[JPT][hapmap];0.91[MEX][hapmap];0.85[TSI][hapmap];0.81[ASN][1000 genomes]
rs7975189	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052503	chr12:66293898-67269495	Weak transcription Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv541515	chr12:66293898-67269495	Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv899213	chr12:66389968-66500036	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	nsv832446	chr12:66393863-66501484	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1049537	chr12:66403269-66606174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10784514	AVPR1A	cis	parietal	SCAN
rs10784514	USP15	cis	cerebellum	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:66450200-66453800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr12:66451400-66454200	Weak transcription	HepG2	liver
3	chr12:66452200-66453800	Enhancers	Fetal Brain Male	brain
4	chr12:66452200-66454200	Enhancers	Fetal Brain Female	brain
5	chr12:66452400-66453600	Enhancers	GM12878-XiMat	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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