Variant report

Variant	rs360053
Chromosome Location	chr11:9714052-9714053
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	chr11:9705932..9707759-chr11:9713203..9714958,2	MCF-7	breast:

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs11042471	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11042472	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11042473	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11042474	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11042475	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11042477	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11042478	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12272167	0.82[AMR][1000 genomes]
rs12275468	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12291809	0.89[ASN][1000 genomes]
rs12295129	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12576997	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12577241	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1390680	0.82[AMR][1000 genomes]
rs1496477	0.82[AMR][1000 genomes]
rs1695613	0.91[JPT][hapmap]
rs2088293	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2101902	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2453831	0.91[JPT][hapmap]
rs2572936	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2572937	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2572938	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2572939	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2572940	0.80[ASN][1000 genomes]
rs2572941	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2572947	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2572948	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2572949	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2572952	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2645014	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2645015	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2645016	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2645018	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2645019	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2645021	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2645022	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2645023	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2645024	0.91[CHB][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes]
rs2649047	0.82[CHB][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes]
rs2649048	0.91[JPT][hapmap]
rs34780673	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs360044	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs360045	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs360046	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs360048	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs360050	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs360052	0.97[ASN][1000 genomes]
rs376553	0.85[CHB][hapmap];0.92[JPT][hapmap]
rs379692	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs389534	0.92[JPT][hapmap]
rs397250	0.91[JPT][hapmap]
rs397602	0.91[JPT][hapmap]
rs397686	0.91[JPT][hapmap]
rs408569	0.91[JPT][hapmap]
rs416766	0.82[AMR][1000 genomes]
rs422061	0.91[JPT][hapmap]
rs431908	0.92[JPT][hapmap]
rs57239484	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67598578	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs73408298	0.84[EUR][1000 genomes]
rs73408300	0.88[EUR][1000 genomes]
rs73410140	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs920081	0.82[CHB][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes]
rs920082	0.91[JPT][hapmap]

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	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1053369	chr11:9647837-9876054	Genic enhancers Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv553468	chr11:9667828-9827871	Weak transcription Genic enhancers Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9686800-9716400	Weak transcription	Ovary	ovary
2	chr11:9703800-9714400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr11:9704200-9723600	Weak transcription	HepG2	liver
4	chr11:9709600-9715600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr11:9710200-9758400	Weak transcription	Psoas Muscle	Psoas
6	chr11:9710400-9732800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr11:9710600-9717000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr11:9710600-9722000	Weak transcription	Fetal Brain Female	brain
9	chr11:9711000-9717000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr11:9711200-9715400	Enhancers	HMEC	breast
11	chr11:9711200-9715400	Enhancers	NHEK	skin
12	chr11:9711200-9715600	Enhancers	Primary hematopoietic stem cells	blood
13	chr11:9711200-9732800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr11:9711400-9714200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr11:9711400-9714400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr11:9711400-9715400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr11:9711400-9715600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr11:9711400-9715600	Enhancers	Primary hematopoietic stem cells short term culture	blood
19	chr11:9711400-9715600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr11:9711400-9715600	Enhancers	Brain Anterior Caudate	brain
21	chr11:9711400-9715800	Weak transcription	Primary T cells from cord blood	blood
22	chr11:9711400-9715800	Enhancers	Brain Hippocampus Middle	brain
23	chr11:9711400-9715800	Weak transcription	Hela-S3	cervix
24	chr11:9711400-9717000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr11:9711400-9718800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr11:9711400-9754400	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr11:9711600-9714200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr11:9711600-9714600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr11:9711600-9715200	Weak transcription	Fetal Thymus	thymus
30	chr11:9711600-9715200	Weak transcription	Pancreas	Pancrea
31	chr11:9711600-9715400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr11:9711600-9715600	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr11:9711600-9715600	Enhancers	Brain Cingulate Gyrus	brain
34	chr11:9711600-9715600	Weak transcription	Esophagus	oesophagus
35	chr11:9711600-9715600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr11:9711600-9715600	Weak transcription	Fetal Muscle Trunk	muscle
37	chr11:9711600-9715600	Weak transcription	Placenta	Placenta
38	chr11:9711600-9715600	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr11:9711600-9715600	Weak transcription	Spleen	Spleen
40	chr11:9711600-9715800	Enhancers	Brain Substantia Nigra	brain
41	chr11:9711600-9716400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr11:9711600-9716600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr11:9711600-9716600	Weak transcription	Fetal Stomach	stomach
44	chr11:9711600-9716800	Weak transcription	Rectal Smooth Muscle	rectum
45	chr11:9711600-9723600	Weak transcription	Fetal Lung	lung
46	chr11:9711600-9724000	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr11:9711600-9724400	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr11:9711600-9725800	Weak transcription	HSMMtube	muscle
49	chr11:9711600-9729600	Weak transcription	Fetal Heart	heart
50	chr11:9711600-9730200	Weak transcription	Right Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links