Variant report

Variant	rs7117657
Chromosome Location	chr11:4053512-4053513
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11821399	0.85[AMR][1000 genomes]
rs11823158	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11827535	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11827750	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs11827795	0.82[YRI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2167562	0.83[YRI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2412336	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57282641	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57292382	1.00[EUR][1000 genomes]
rs57365434	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58151848	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58461583	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59108256	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59178256	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59580400	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59842937	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59973839	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60110100	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60462758	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61225070	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61355819	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61589687	0.85[AFR][1000 genomes]
rs6578420	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6578421	1.00[EUR][1000 genomes]
rs6578435	0.84[YRI][hapmap];0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7109227	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7114373	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7122796	0.85[AMR][1000 genomes]
rs7123124	0.90[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7128522	0.86[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72555753	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7924332	0.83[YRI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7926343	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7931280	0.81[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7938706	0.84[YRI][hapmap];0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7938862	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7939086	0.82[YRI][hapmap];0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7939090	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7940292	0.86[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7940511	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7942028	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7942271	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7943217	0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7949898	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs894456	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv896896	chr11:4010409-4185595	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv1042719	chr11:4017541-4101609	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:4038200-4057200	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr11:4038200-4065200	Weak transcription	Left Ventricle	heart
3	chr11:4038400-4065400	Weak transcription	Esophagus	oesophagus
4	chr11:4039200-4056400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr11:4041800-4054600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr11:4046000-4061400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr11:4047400-4053800	Weak transcription	Aorta	Aorta
8	chr11:4047400-4055400	Weak transcription	Brain Cingulate Gyrus	brain
9	chr11:4047400-4061400	Weak transcription	Primary neutrophils fromperipheralblood	blood
10	chr11:4047800-4077400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr11:4048000-4060000	Weak transcription	NHDF-Ad	bronchial
12	chr11:4048000-4077600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr11:4048400-4054400	Weak transcription	Primary hematopoietic stem cells	blood
14	chr11:4048400-4054800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr11:4048400-4061400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr11:4048400-4061800	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr11:4048400-4062000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr11:4048400-4063200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr11:4048400-4065800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr11:4048600-4077800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr11:4049000-4053600	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr11:4049600-4070600	Weak transcription	Thymus	Thymus
23	chr11:4049800-4065400	Weak transcription	Primary T helper cells fromperipheralblood	blood
24	chr11:4050200-4070800	Weak transcription	Fetal Thymus	thymus
25	chr11:4051000-4080400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr11:4051200-4070200	Weak transcription	Monocytes-CD14+_RO01746	blood
27	chr11:4051400-4065400	Weak transcription	Pancreas	Pancrea
28	chr11:4052000-4053800	ZNF genes & repeats	Primary T cells from cord blood	blood
29	chr11:4052000-4053800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr11:4052200-4054600	Weak transcription	Liver	Liver
31	chr11:4052800-4054000	Strong transcription	Primary B cells from cord blood	blood
32	chr11:4053200-4053800	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr11:4053200-4053800	ZNF genes & repeats	Dnd41	blood
34	chr11:4053400-4053600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr11:4053400-4053600	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
36	chr11:4053400-4053600	Enhancers	Psoas Muscle	Psoas
37	chr11:4053400-4054000	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links