Variant report

Variant	rs2869531
Chromosome Location	chr11:47797402-47797403
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:47774748..47776912-chr11:47797365..47799595,2	K562	blood:
2	chr11:47796732..47798783-chr11:47798961..47800797,2	MCF-7	breast:
3	chr11:47796142..47797778-chr11:47800314..47803112,2	MCF-7	breast:
4	chr11:47788346..47792953-chr11:47794926..47797941,5	K562	blood:
5	chr11:47787848..47790479-chr11:47795316..47798585,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109920	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10742816	0.90[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap]
rs11039387	1.00[ASN][1000 genomes]
rs11819979	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11820480	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1474056	0.90[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs17791016	0.90[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1872167	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2138767	0.90[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs2305982	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2305983	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2869532	0.88[ASN][1000 genomes]
rs4147730	0.90[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap]
rs4303192	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4752786	0.90[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs4752791	0.90[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4752871	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4752872	0.90[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4752877	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4752879	0.93[ASN][1000 genomes]
rs57436966	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58357937	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59205786	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60515486	0.85[ASN][1000 genomes]
rs6485772	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6485774	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6485783	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6485784	0.98[ASN][1000 genomes]
rs6485788	0.95[CHB][hapmap];0.89[JPT][hapmap];0.95[ASN][1000 genomes]
rs7116299	0.81[AMR][1000 genomes]
rs7120737	0.90[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7121264	0.88[ASN][1000 genomes]
rs7124949	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7924699	0.94[ASN][1000 genomes]
rs7927611	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7931089	0.89[CEU][hapmap];0.94[CHB][hapmap];0.80[ASN][1000 genomes]
rs7942031	0.95[CHB][hapmap];0.89[JPT][hapmap];0.95[ASN][1000 genomes]
rs7945911	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7952204	0.95[CHB][hapmap];0.84[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469858	chr11:47647515-47837172	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
2	nsv1052397	chr11:47675470-48594256	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
3	nsv832143	chr11:47700808-47883540	Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
4	nsv530620	chr11:47765455-48664555	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats 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 miRNA target site	93 gene(s)	inside rSNPs	diseases
5	nsv1036992	chr11:47794621-48666024	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:47789800-47798600	Weak transcription	Ovary	ovary
2	chr11:47790000-47798800	Weak transcription	Colonic Mucosa	Colon
3	chr11:47790000-47800200	Weak transcription	Psoas Muscle	Psoas
4	chr11:47790000-47800200	Weak transcription	Stomach Mucosa	stomach
5	chr11:47790000-47806800	Weak transcription	Esophagus	oesophagus
6	chr11:47790000-47837800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr11:47790200-47798400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr11:47790200-47798600	Weak transcription	Pancreas	Pancrea
9	chr11:47790200-47798800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr11:47790200-47798800	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr11:47790200-47798800	Weak transcription	Rectal Smooth Muscle	rectum
12	chr11:47790200-47798800	Weak transcription	Right Ventricle	heart
13	chr11:47790200-47799000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr11:47790200-47801000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr11:47790200-47801600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr11:47790200-47805200	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr11:47790200-47869200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr11:47790400-47798400	Weak transcription	Primary neutrophils fromperipheralblood	blood
19	chr11:47790400-47798400	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr11:47790400-47798600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr11:47790400-47798600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr11:47790400-47798600	Weak transcription	Colon Smooth Muscle	Colon
23	chr11:47790400-47798600	Weak transcription	Left Ventricle	heart
24	chr11:47790400-47798600	Weak transcription	HUVEC	blood vessel
25	chr11:47790400-47798800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr11:47790400-47798800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr11:47790400-47798800	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr11:47790400-47798800	Weak transcription	Brain Substantia Nigra	brain
29	chr11:47790400-47798800	Weak transcription	Fetal Kidney	kidney
30	chr11:47790400-47798800	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr11:47790400-47798800	Weak transcription	HSMMtube	muscle
32	chr11:47790400-47798800	Weak transcription	NH-A	brain
33	chr11:47790400-47799000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr11:47790400-47799000	Weak transcription	Brain Cingulate Gyrus	brain
35	chr11:47790400-47800000	Weak transcription	NHDF-Ad	bronchial
36	chr11:47790400-47800200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
37	chr11:47790400-47800200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr11:47790400-47800400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
39	chr11:47790400-47800400	Weak transcription	Brain Angular Gyrus	brain
40	chr11:47790400-47800400	Weak transcription	Fetal Brain Male	brain
41	chr11:47790400-47800600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr11:47790600-47798600	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr11:47790600-47798600	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr11:47790800-47832200	Weak transcription	Small Intestine	intestine
45	chr11:47795200-47845600	Strong transcription	Fetal Muscle Trunk	muscle
46	chr11:47795400-47804400	Strong transcription	Fetal Intestine Small	intestine
47	chr11:47795400-47866600	Strong transcription	Fetal Thymus	thymus
48	chr11:47795400-47868400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr11:47795600-47808200	Strong transcription	Primary B cells from cord blood	blood
50	chr11:47795600-47810600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links