Variant report

Variant	rs6896630
Chromosome Location	chr5:178224463-178224464
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:178223973..178226497-chr5:178266303..178268866,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000253725	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10903231	0.85[CHB][hapmap]
rs10903233	0.85[CHB][hapmap]
rs11249583	0.84[CHB][hapmap]
rs11249586	0.85[CHB][hapmap]
rs11249587	0.85[CHB][hapmap]
rs11249591	0.85[CHB][hapmap]
rs11742308	0.82[ASN][1000 genomes]
rs11742485	0.82[ASN][1000 genomes]
rs11744463	0.95[ASN][1000 genomes]
rs11747183	0.81[AMR][1000 genomes]
rs11750087	0.93[ASN][1000 genomes]
rs11750778	0.96[ASN][1000 genomes]
rs11952175	0.85[CHB][hapmap]
rs11952214	0.84[CHB][hapmap]
rs12055051	0.85[CHB][hapmap]
rs12152723	0.85[CHB][hapmap]
rs13167335	0.97[ASN][1000 genomes]
rs13174654	0.85[CHB][hapmap]
rs13177176	0.85[CHB][hapmap]
rs13177181	0.85[CHB][hapmap]
rs13181764	0.92[CHB][hapmap]
rs13184871	0.97[ASN][1000 genomes]
rs13184885	0.96[ASN][1000 genomes]
rs13186155	0.92[ASN][1000 genomes]
rs34040448	0.97[ASN][1000 genomes]
rs34097808	0.92[ASN][1000 genomes]
rs34333217	0.93[ASN][1000 genomes]
rs34404810	0.92[ASN][1000 genomes]
rs34638365	0.94[ASN][1000 genomes]
rs34654809	0.93[ASN][1000 genomes]
rs34744054	0.81[ASN][1000 genomes]
rs34755091	0.93[ASN][1000 genomes]
rs34987899	0.90[ASN][1000 genomes]
rs35191404	0.94[ASN][1000 genomes]
rs35320769	0.93[ASN][1000 genomes]
rs35374087	0.97[ASN][1000 genomes]
rs35930664	0.91[ASN][1000 genomes]
rs55661365	0.94[ASN][1000 genomes]
rs55893193	0.94[ASN][1000 genomes]
rs55897858	0.94[ASN][1000 genomes]
rs56078392	0.94[ASN][1000 genomes]
rs56081363	0.94[ASN][1000 genomes]
rs56090685	0.92[ASN][1000 genomes]
rs56162146	0.93[ASN][1000 genomes]
rs56345756	0.92[ASN][1000 genomes]
rs56399130	0.94[ASN][1000 genomes]
rs6876980	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6877160	0.84[JPT][hapmap];0.96[ASN][1000 genomes]
rs6881517	0.97[ASN][1000 genomes]
rs6894928	0.97[ASN][1000 genomes]
rs7442757	0.85[CHB][hapmap]
rs7444416	0.97[ASN][1000 genomes]
rs7729337	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs868290	0.85[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031666	chr5:177988601-178236068	Bivalent/Poised TSS Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1031206	chr5:178149292-178283614	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv537973	chr5:178149292-178283614	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv462573	chr5:178180299-178241495	Bivalent Enhancer ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv600452	chr5:178180299-178241495	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv883218	chr5:178219855-178349391	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178221200-178228000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr5:178224000-178224800	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr5:178224000-178224800	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin

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