Variant report

Variant	rs7102197
Chromosome Location	chr11:73051070-73051071
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA3	chr11:73050871-73051169	T-47D	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:73045859..73047367-chr11:73050454..73052611,2	MCF-7	breast:
2	chr11:73050857..73052738-chr11:73086451..73088096,2	MCF-7	breast:
3	chr11:72999041..73001772-chr11:73050425..73052221,2	K562	blood:

Variant related genes	Relation type
ARHGEF17	TF binding region
ENSG00000054967	Chromatin interaction
ENSG00000171631	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs1002126	1.00[JPT][hapmap]
rs11235738	1.00[JPT][hapmap]
rs11235745	0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs11235746	1.00[JPT][hapmap]
rs11235759	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs11235770	0.85[CHD][hapmap]
rs11235775	0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs11820929	1.00[JPT][hapmap]
rs11821094	1.00[JPT][hapmap]
rs11823913	1.00[JPT][hapmap]
rs11823923	1.00[JPT][hapmap]
rs11824614	1.00[JPT][hapmap]
rs11826896	1.00[JPT][hapmap]
rs11826909	1.00[JPT][hapmap]
rs11828904	1.00[JPT][hapmap]
rs12269884	1.00[JPT][hapmap]
rs12274589	1.00[JPT][hapmap]
rs12275766	1.00[JPT][hapmap]
rs12282282	1.00[JPT][hapmap]
rs12282790	1.00[JPT][hapmap]
rs12288753	1.00[JPT][hapmap]
rs12290623	1.00[JPT][hapmap]
rs12290835	1.00[JPT][hapmap]
rs1894076	1.00[JPT][hapmap]
rs1938777	0.87[CHD][hapmap];1.00[JPT][hapmap]
rs2027760	0.81[AFR][1000 genomes]
rs2027761	0.81[ASW][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap]
rs2027763	1.00[JPT][hapmap];0.81[AFR][1000 genomes]
rs2298469	1.00[JPT][hapmap]
rs2298807	1.00[JPT][hapmap]
rs3741149	1.00[CHD][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];1.00[MEX][hapmap]
rs3825005	0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs3933402	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs57727431	0.91[ASN][1000 genomes]
rs57792931	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57860998	1.00[ASN][1000 genomes]
rs57893472	0.86[AFR][1000 genomes]
rs59376886	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60038108	0.91[ASN][1000 genomes]
rs60436721	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61037777	0.87[AFR][1000 genomes]
rs61218298	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6592521	1.00[JPT][hapmap]
rs7101831	1.00[JPT][hapmap]
rs7102423	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7105681	0.82[AFR][1000 genomes]
rs7109601	0.85[ASW][hapmap]
rs7113420	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7114009	0.87[CHD][hapmap];1.00[JPT][hapmap]
rs7114376	1.00[JPT][hapmap]
rs7118982	1.00[JPT][hapmap]
rs7123298	1.00[JPT][hapmap]
rs7123300	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7125598	0.87[CHD][hapmap];1.00[JPT][hapmap]
rs7125978	1.00[JPT][hapmap];0.81[AFR][1000 genomes]
rs7131383	1.00[JPT][hapmap]
rs7131397	1.00[JPT][hapmap]
rs725103	1.00[JPT][hapmap]
rs7342152	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7342205	1.00[JPT][hapmap]
rs7930880	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs7934218	0.87[CHD][hapmap];1.00[JPT][hapmap]
rs7935948	0.87[CHD][hapmap];1.00[JPT][hapmap]
rs7937210	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7941359	0.87[CHD][hapmap];1.00[JPT][hapmap]
rs7944099	1.00[JPT][hapmap]
rs7944346	1.00[JPT][hapmap]
rs7949364	0.86[AFR][1000 genomes]
rs7952686	1.00[JPT][hapmap]
rs876480	1.00[JPT][hapmap]
rs880317	1.00[JPT][hapmap]
rs947836	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs947837	1.00[JPT][hapmap]
rs9888218	1.00[JPT][hapmap]

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	nsv832208	chr11:72876184-73091003	Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	54 gene(s)	inside rSNPs	diseases
2	esv1821041	chr11:72937162-73113080	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
3	nsv520665	chr11:72999221-73061856	Flanking Active TSS Bivalent/Poised TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv825993	chr11:73029209-73091929	Active TSS Strong transcription Genic enhancers Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
5	nsv897911	chr11:73044351-73108276	Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:73044800-73053000	Weak transcription	Aorta	Aorta
2	chr11:73045800-73053400	Weak transcription	Pancreas	Pancrea
3	chr11:73046400-73051200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr11:73046400-73051200	Weak transcription	Left Ventricle	heart
5	chr11:73046400-73052800	Weak transcription	Brain Germinal Matrix	brain
6	chr11:73046400-73052800	Weak transcription	Lung	lung
7	chr11:73046400-73053000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr11:73046400-73053200	Weak transcription	Gastric	stomach
9	chr11:73046400-73053400	Weak transcription	Brain Substantia Nigra	brain
10	chr11:73046600-73051200	Weak transcription	NHEK	skin
11	chr11:73046600-73053000	Weak transcription	Right Atrium	heart
12	chr11:73046600-73053400	Weak transcription	Colonic Mucosa	Colon
13	chr11:73046600-73053400	Weak transcription	Fetal Brain Male	brain
14	chr11:73046600-73058600	Weak transcription	Primary hematopoietic stem cells	blood
15	chr11:73046600-73058800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr11:73046600-73061600	Weak transcription	Primary B cells from cord blood	blood
17	chr11:73046600-73075400	Weak transcription	A549	lung
18	chr11:73046800-73053400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr11:73047000-73052800	Weak transcription	Liver	Liver
20	chr11:73047000-73053000	Strong transcription	Fetal Stomach	stomach
21	chr11:73047000-73053200	Weak transcription	Fetal Brain Female	brain
22	chr11:73047000-73053200	Strong transcription	Fetal Intestine Small	intestine
23	chr11:73047000-73053200	Weak transcription	HSMM	muscle
24	chr11:73047000-73053400	Weak transcription	Fetal Kidney	kidney
25	chr11:73047000-73053600	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr11:73047000-73053600	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr11:73047000-73054600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr11:73047200-73051200	Weak transcription	Spleen	Spleen
29	chr11:73047200-73052000	Weak transcription	Hela-S3	cervix
30	chr11:73047200-73052600	Weak transcription	Fetal Heart	heart
31	chr11:73047200-73053400	Weak transcription	Fetal Lung	lung
32	chr11:73047200-73053400	Weak transcription	HUVEC	blood vessel
33	chr11:73047200-73053600	Weak transcription	NH-A	brain
34	chr11:73047400-73058400	Weak transcription	Primary neutrophils fromperipheralblood	blood
35	chr11:73048000-73052600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr11:73048000-73052800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr11:73049000-73051200	Enhancers	Stomach Smooth Muscle	stomach
38	chr11:73049000-73051800	Enhancers	Skeletal Muscle Male	skeletal muscle
39	chr11:73049000-73052000	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr11:73049000-73053400	Enhancers	Duodenum Smooth Muscle	Duodenum
41	chr11:73049000-73054600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr11:73049200-73051600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr11:73049200-73053400	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr11:73049200-73053400	Weak transcription	Fetal Intestine Large	intestine
45	chr11:73049400-73052000	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr11:73049400-73054600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr11:73049600-73051400	Enhancers	Colon Smooth Muscle	Colon
48	chr11:73049600-73051800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr11:73049600-73051800	Weak transcription	Placenta	Placenta
50	chr11:73049600-73053000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links