Variant report

Variant	rs12202026
Chromosome Location	chr6:5591866-5591867
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1983561	0.96[CEU][hapmap];0.92[GIH][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes]
rs2142737	0.96[CEU][hapmap];0.85[GIH][hapmap];0.80[EUR][1000 genomes]
rs4960103	0.84[CEU][hapmap];0.87[GIH][hapmap];0.89[TSI][hapmap];0.80[EUR][1000 genomes]
rs4960104	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs4960105	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs4960109	0.96[CEU][hapmap];0.92[EUR][1000 genomes]
rs4960110	0.91[CHB][hapmap];0.86[CHD][hapmap];0.82[GIH][hapmap];0.89[ASN][1000 genomes]
rs6597145	0.85[EUR][1000 genomes]
rs742114	0.92[EUR][1000 genomes]
rs9405275	0.92[EUR][1000 genomes]
rs9502319	0.91[CHB][hapmap];0.82[ASN][1000 genomes]
rs9504439	0.91[CHB][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1019428	chr6:5216835-5627839	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv538118	chr6:5216835-5627839	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv916361	chr6:5315853-5695486	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv600887	chr6:5545046-5694713	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1016905	chr6:5566364-5639167	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv970722	chr6:5588680-5593976	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv969475	chr6:5589289-5593274	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5577400-5639800	Weak transcription	Fetal Intestine Small	intestine
2	chr6:5581000-5614200	Weak transcription	Lung	lung
3	chr6:5581000-5640400	Weak transcription	Gastric	stomach
4	chr6:5582200-5595000	Weak transcription	Fetal Stomach	stomach
5	chr6:5585400-5593200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr6:5587000-5595200	Weak transcription	Spleen	Spleen
7	chr6:5587200-5619400	Weak transcription	Primary B cells from cord blood	blood
8	chr6:5589600-5594000	Weak transcription	Esophagus	oesophagus
9	chr6:5590000-5604400	Weak transcription	Pancreas	Pancrea
10	chr6:5590800-5622000	Weak transcription	Right Atrium	heart
11	chr6:5591000-5595600	Weak transcription	Stomach Smooth Muscle	stomach
12	chr6:5591200-5619000	Weak transcription	Primary B cells from peripheral blood	blood
13	chr6:5591600-5626400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr6:5591800-5597200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr6:5591800-5605000	Weak transcription	Primary T cells from cord blood	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
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