Variant report

Variant	rs292132
Chromosome Location	chr20:52878277-52878278
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:52824433..52826440-chr20:52877518..52879448,2	MCF-7	breast:
2	chr20:52844235..52847493-chr20:52876743..52879429,3	MCF-7	breast:
3	chr20:52850887..52853833-chr20:52876658..52879639,2	MCF-7	breast:
4	chr20:52877688..52880312-chr20:52960280..52962088,2	MCF-7	breast:
5	chr20:52876447..52879251-chr20:52932315..52933994,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000101132	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1293132	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1293144	0.80[AMR][1000 genomes]
rs1298513	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1382015	0.89[ASN][1000 genomes]
rs1477730	0.98[ASN][1000 genomes]
rs1542523	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2061721	0.87[ASN][1000 genomes]
rs2153964	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2153965	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2185849	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2616330	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2616335	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs292120	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs292123	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs292125	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs292126	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs292139	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs292141	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs292143	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs292144	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs292146	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6013944	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6023082	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases
2	nsv834010	chr20:52759824-52932939	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
3	nsv834011	chr20:52858341-53086042	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52872800-52883800	Weak transcription	Pancreas	Pancrea
2	chr20:52874000-52879200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr20:52874200-52879400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr20:52874200-52883600	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr20:52874200-52884000	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr20:52874400-52879400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr20:52874400-52879600	Weak transcription	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links