Variant report

Variant	rs6936326
Chromosome Location	chr6:11500186-11500187
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:5001504..5004136-chr6:11500081..11502077,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000124787	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10947398	0.81[EUR][1000 genomes]
rs11752836	0.81[EUR][1000 genomes]
rs12528839	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs145176	0.80[EUR][1000 genomes]
rs2327440	0.96[CEU][hapmap];0.95[JPT][hapmap]
rs2758307	0.82[EUR][1000 genomes]
rs2807964	0.81[EUR][1000 genomes]
rs4711303	0.89[JPT][hapmap]
rs4713562	0.89[JPT][hapmap]
rs4713577	0.89[JPT][hapmap]
rs4713579	0.88[CHB][hapmap];0.89[JPT][hapmap]
rs4713618	0.80[CEU][hapmap]
rs478147	0.94[CHB][hapmap];0.89[JPT][hapmap]
rs483637	0.86[ASN][1000 genomes]
rs490466	0.94[CHB][hapmap];0.83[JPT][hapmap]
rs513870	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs554671	0.88[CHB][hapmap];0.89[JPT][hapmap]
rs555034	0.93[CHB][hapmap];0.89[JPT][hapmap]
rs555742	0.88[CHB][hapmap];0.84[JPT][hapmap]
rs56055084	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs566237	0.84[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs595877	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs598907	0.82[CHB][hapmap]
rs606402	0.94[CHB][hapmap];0.89[JPT][hapmap]
rs616729	0.82[EUR][1000 genomes]
rs620729	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs628980	0.94[CHB][hapmap];0.89[JPT][hapmap]
rs651001	0.81[EUR][1000 genomes]
rs675565	0.88[CHB][hapmap];0.89[JPT][hapmap]
rs678862	0.88[CHB][hapmap];0.89[JPT][hapmap]
rs681483	0.85[CEU][hapmap]
rs685384	0.94[CHB][hapmap];0.83[JPT][hapmap]
rs6916089	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6930371	0.81[EUR][1000 genomes]
rs7770004	0.80[EUR][1000 genomes]
rs9394102	0.81[CEU][hapmap]
rs9394109	0.88[CHB][hapmap];0.89[JPT][hapmap]
rs9394115	0.94[CHB][hapmap];0.89[JPT][hapmap]
rs9394119	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394154	0.96[CEU][hapmap];0.82[EUR][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	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv432848	chr6:11371614-11560114	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 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	chr6:11494400-11500600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr6:11496600-11500200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:11497000-11500200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr6:11498600-11500200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:11499800-11500400	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr6:11499800-11500800	Enhancers	NH-A	brain
7	chr6:11499800-11501000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr6:11500000-11500200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr6:11500000-11500400	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr6:11500000-11500400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:11500000-11500400	Enhancers	HepG2	liver
12	chr6:11500000-11500400	Enhancers	NHEK	skin
13	chr6:11500000-11500600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr6:11500000-11500600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr6:11500000-11501000	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links