Variant report

Variant	rs12025982
Chromosome Location	chr1:56564716-56564717
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10158150	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10888955	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11206731	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11206735	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1149639	0.87[ASN][1000 genomes]
rs1156337	0.81[EUR][1000 genomes]
rs1156338	0.80[EUR][1000 genomes]
rs12041298	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12043247	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12131359	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1235423	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1331855	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1331856	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1412215	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1412217	0.92[ASN][1000 genomes]
rs1547157	0.81[EUR][1000 genomes]
rs1724988	0.86[ASN][1000 genomes]
rs1998715	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2211047	0.81[EUR][1000 genomes]
rs2404391	0.81[EUR][1000 genomes]
rs2404393	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4926707	0.83[EUR][1000 genomes]
rs4926708	0.83[EUR][1000 genomes]
rs56845669	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61772104	0.81[EUR][1000 genomes]
rs6670027	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6673458	0.85[EUR][1000 genomes]
rs6675451	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7525207	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7534031	0.81[EUR][1000 genomes]
rs7551693	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs778122	0.86[ASN][1000 genomes]
rs778127	0.92[ASN][1000 genomes]
rs9436997	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs973501	0.81[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv947488	chr1:56550325-56571505	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12025982	POU3F1	trans	parietal	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56558600-56568000	Enhancers	NHDF-Ad	bronchial
2	chr1:56562400-56565400	Weak transcription	Fetal Thymus	thymus
3	chr1:56562600-56565400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr1:56563400-56566800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr1:56563800-56566000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr1:56563800-56566400	Enhancers	Dnd41	blood
7	chr1:56563800-56566400	Enhancers	Osteobl	bone
8	chr1:56564000-56566400	Enhancers	NHLF	lung
9	chr1:56564200-56564800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr1:56564200-56564800	Enhancers	Fetal Stomach	stomach
11	chr1:56564200-56565200	Enhancers	Muscle Satellite Cultured Cells	--
12	chr1:56564200-56566000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr1:56564200-56566200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr1:56564200-56566400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links