Variant report

Variant	rs4520564
Chromosome Location	chr11:101303396-101303397
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:101296877..101299041-chr11:101301262..101303756,2	MCF-7	breast:
2	chr11:101299826..101304335-chr11:101307356..101314246,9	MCF-7	breast:
3	chr11:100992008..101001878-chr11:101300412..101311512,29	MCF-7	breast:
4	chr11:101299708..101303554-chr11:101304150..101306716,3	MCF-7	breast:
5	chr11:101261268..101263471-chr11:101303237..101305024,2	MCF-7	breast:
6	chr11:101214168..101217557-chr11:101302222..101305735,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000082175	Chromatin interaction

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

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

rs_ID	r²[population]
rs10458946	0.98[ASN][1000 genomes]
rs11224695	1.00[YRI][hapmap]
rs11224726	1.00[CEU][hapmap];0.89[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11224743	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11224745	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11224747	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11224749	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11224750	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11224752	0.98[ASN][1000 genomes]
rs11224753	0.98[ASN][1000 genomes]
rs11224754	0.98[ASN][1000 genomes]
rs11224755	0.98[ASN][1000 genomes]
rs11224756	0.98[ASN][1000 genomes]
rs11224758	0.98[ASN][1000 genomes]
rs11224759	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11224760	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11224765	1.00[ASW][hapmap];1.00[YRI][hapmap]
rs11224772	1.00[ASW][hapmap];1.00[YRI][hapmap]
rs11224773	1.00[ASW][hapmap];1.00[YRI][hapmap]
rs11534488	0.83[ASN][1000 genomes]
rs1218919	0.82[MEX][hapmap];1.00[MKK][hapmap]
rs1218927	0.82[MEX][hapmap];1.00[MKK][hapmap]
rs12221599	0.94[EUR][1000 genomes]
rs12222760	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12225785	0.94[EUR][1000 genomes]
rs12226619	0.87[EUR][1000 genomes]
rs12226883	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12785425	0.87[EUR][1000 genomes]
rs12786491	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12788461	1.00[ASW][hapmap];1.00[YRI][hapmap]
rs12788470	1.00[CEU][hapmap];0.89[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12789079	0.87[EUR][1000 genomes]
rs12790277	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12790740	0.84[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12794328	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12794587	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12794694	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12795350	0.96[ASN][1000 genomes]
rs12795968	0.98[ASN][1000 genomes]
rs12796333	0.98[ASN][1000 genomes]
rs12796675	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12797620	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12797860	1.00[CEU][hapmap];0.82[CHB][hapmap];0.87[EUR][1000 genomes]
rs12798288	0.98[ASN][1000 genomes]
rs12798689	0.82[CHB][hapmap]
rs12798887	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12800455	1.00[EUR][1000 genomes]
rs12802904	0.98[ASN][1000 genomes]
rs12803364	1.00[CEU][hapmap];0.84[JPT][hapmap];0.89[EUR][1000 genomes]
rs12803560	0.98[ASN][1000 genomes]
rs12803803	0.98[ASN][1000 genomes]
rs12803811	0.98[ASN][1000 genomes]
rs12805525	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12805898	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12807799	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1938988	0.94[EUR][1000 genomes]
rs1938991	0.93[ASN][1000 genomes]
rs1938994	0.89[JPT][hapmap]
rs1939001	1.00[CEU][hapmap];0.89[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35452558	0.98[ASN][1000 genomes]
rs35508193	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7108099	0.82[CHB][hapmap]
rs7121801	0.89[ASN][1000 genomes]
rs71462683	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71462684	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs744021	0.93[ASN][1000 genomes]
rs7926811	0.97[ASN][1000 genomes]
rs7939471	0.91[ASN][1000 genomes]
rs9633973	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9633974	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9633975	0.93[AMR][1000 genomes];0.91[EUR][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	nsv556131	chr11:100985777-101480017	Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
2	nsv530644	chr11:101010088-101486038	Strong transcription Weak transcription Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	esv2753322	chr11:101052790-101311790	Flanking Bivalent TSS/Enh Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv898330	chr11:101243644-101722031	Enhancers Bivalent/Poised TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
5	nsv468851	chr11:101268447-101330807	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv556132	chr11:101268447-101330807	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:101299800-101304000	Enhancers	Ovary	ovary
2	chr11:101300000-101307600	Enhancers	Fetal Lung	lung
3	chr11:101301000-101303600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr11:101301200-101306200	Weak transcription	Stomach Smooth Muscle	stomach
5	chr11:101301600-101303600	Weak transcription	Fetal Brain Male	brain
6	chr11:101302000-101303600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr11:101302000-101303600	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr11:101302000-101304800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr11:101302000-101304800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr11:101302000-101306400	Weak transcription	NHLF	lung
11	chr11:101302000-101316800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr11:101302200-101304200	Weak transcription	HMEC	breast
13	chr11:101302200-101304800	Weak transcription	NHEK	skin
14	chr11:101302200-101306400	Weak transcription	Rectal Smooth Muscle	rectum
15	chr11:101302600-101304000	Enhancers	Stomach Mucosa	stomach
16	chr11:101302600-101307400	Enhancers	Colon Smooth Muscle	Colon
17	chr11:101303200-101303400	Enhancers	Fetal Stomach	stomach
18	chr11:101303200-101304400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links