Variant report

Variant	rs1652456
Chromosome Location	chr6:161215051-161215052
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:161213757..161216214-chr6:161411268..161413950,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000085511	Chromatin interaction
ENSG00000272841	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10455783	0.82[ASN][1000 genomes]
rs10455784	0.82[ASN][1000 genomes]
rs11756055	0.90[ASN][1000 genomes]
rs11758404	0.91[ASN][1000 genomes]
rs1247559	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1247560	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1247564	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1247565	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1247567	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1247572	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12526591	0.80[ASN][1000 genomes]
rs1271391	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13203571	0.83[ASN][1000 genomes]
rs13216458	0.80[ASN][1000 genomes]
rs1344731	0.80[ASN][1000 genomes]
rs1358755	0.92[ASN][1000 genomes]
rs1367216	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1549741	0.80[ASN][1000 genomes]
rs1590185	0.89[ASN][1000 genomes]
rs1611873	0.84[ASN][1000 genomes]
rs1620969	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1652481	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1652498	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1652501	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1740430	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1740431	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1740445	0.86[ASN][1000 genomes]
rs1740447	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1740466	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1782627	0.86[ASN][1000 genomes]
rs1782628	0.85[ASN][1000 genomes]
rs1782629	0.85[ASN][1000 genomes]
rs1835344	0.89[ASN][1000 genomes]
rs1853022	0.94[ASN][1000 genomes]
rs1965092	0.80[ASN][1000 genomes]
rs1991598	0.80[ASN][1000 genomes]
rs2115869	0.81[ASN][1000 genomes]
rs2115870	0.82[ASN][1000 genomes]
rs2115871	0.82[ASN][1000 genomes]
rs2465835	0.83[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2465836	0.90[CHB][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28408689	0.85[ASN][1000 genomes]
rs34797199	0.80[ASN][1000 genomes]
rs4708878	0.80[ASN][1000 genomes]
rs4708881	0.80[ASN][1000 genomes]
rs4708882	0.80[ASN][1000 genomes]
rs4708888	0.80[ASN][1000 genomes]
rs4708889	0.83[ASN][1000 genomes]
rs4708891	0.83[ASN][1000 genomes]
rs4708892	0.83[ASN][1000 genomes]
rs4708893	0.83[ASN][1000 genomes]
rs4709466	0.80[ASN][1000 genomes]
rs4709467	0.80[ASN][1000 genomes]
rs4709469	0.80[ASN][1000 genomes]
rs4709470	0.94[ASN][1000 genomes]
rs66496533	0.91[ASN][1000 genomes]
rs7450979	0.95[JPT][hapmap]
rs783157	0.84[EUR][1000 genomes]
rs783176	0.84[CHB][hapmap];0.81[EUR][1000 genomes]
rs9456586	0.80[ASN][1000 genomes]
rs9456587	0.91[ASN][1000 genomes]
rs9456588	0.92[ASN][1000 genomes]
rs9456589	0.92[ASN][1000 genomes]
rs9456590	0.94[ASN][1000 genomes]
rs9458025	0.80[ASN][1000 genomes]
rs9458026	0.80[ASN][1000 genomes]
rs9458030	0.84[ASN][1000 genomes]
rs9458031	0.85[ASN][1000 genomes]
rs9458035	0.91[ASN][1000 genomes]
rs9458036	0.92[ASN][1000 genomes]
rs9458039	0.89[ASN][1000 genomes]

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	esv2758089	chr6:160372244-161234665	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	esv2759484	chr6:160372244-161234665	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	esv3352911	chr6:161140543-161324358	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv830853	chr6:161180005-161376481	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv2422347	chr6:161211171-161442377	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv886815	chr6:161213047-161258658	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161211600-161216400	Weak transcription	Esophagus	oesophagus
2	chr6:161211600-161216400	Weak transcription	Placenta	Placenta
3	chr6:161212800-161215200	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr6:161214000-161216200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:161214000-161216800	Weak transcription	HMEC	breast
6	chr6:161214200-161215800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr6:161214600-161217200	Enhancers	NHEK	skin
8	chr6:161214600-161217600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr6:161214800-161215200	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr6:161214800-161217200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links