Variant report

Variant	rs1787724
Chromosome Location	chr11:62542291-62542292
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:62527441..62530778-chr11:62541407..62544896,4	K562	blood:
2	chr11:62537392..62541259-chr11:62542072..62545425,5	K562	blood:
3	chr11:62541454..62543662-chr11:62608049..62610551,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168002	Chromatin interaction
ENSG00000267811	Chromatin interaction
ENSG00000162227	Chromatin interaction
ENSG00000133316	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11822922	1.00[EUR][1000 genomes]
rs12273912	1.00[EUR][1000 genomes]
rs2510538	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2584915	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2584917	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2730030	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2956139	1.00[EUR][1000 genomes]
rs2958240	1.00[EUR][1000 genomes]
rs481272	1.00[EUR][1000 genomes]
rs482331	1.00[EUR][1000 genomes]
rs486451	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs489275	1.00[EUR][1000 genomes]
rs4963309	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs506132	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs507101	1.00[EUR][1000 genomes]
rs514401	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs518780	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs519473	1.00[EUR][1000 genomes]
rs523328	1.00[EUR][1000 genomes]
rs544573	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs560618	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs561385	1.00[EUR][1000 genomes]
rs56226867	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs56262657	1.00[EUR][1000 genomes]
rs564587	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs572513	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs573146	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs57338459	1.00[EUR][1000 genomes]
rs575134	1.00[EUR][1000 genomes]
rs577071	1.00[EUR][1000 genomes]
rs57858466	1.00[EUR][1000 genomes]
rs592337	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs595108	1.00[EUR][1000 genomes]
rs60568977	1.00[EUR][1000 genomes]
rs60668695	1.00[EUR][1000 genomes]
rs619109	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs646194	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs692773	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs694678	1.00[EUR][1000 genomes]
rs73487834	1.00[EUR][1000 genomes]
rs73487878	1.00[EUR][1000 genomes]
rs73487879	1.00[EUR][1000 genomes]
rs73487880	1.00[EUR][1000 genomes]
rs73490026	1.00[EUR][1000 genomes]
rs73502133	1.00[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	nsv915636	chr11:62016992-62713565	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1441 gene(s)	inside rSNPs	diseases
2	nsv532283	chr11:62201358-62863475	Enhancers Flanking Active TSS Genic enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1433 gene(s)	inside rSNPs	diseases
3	nsv532284	chr11:62220043-62630253	Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Enhancers Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1401 gene(s)	inside rSNPs	diseases
4	nsv497903	chr11:62330308-62608042	Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	489 gene(s)	inside rSNPs	diseases
5	nsv897623	chr11:62438819-62603916	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers 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 miRNA miRNA target site	215 gene(s)	inside rSNPs	diseases
6	nsv555175	chr11:62538829-62555086	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	65 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:62539400-62554200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr11:62539600-62542600	Weak transcription	Gastric	stomach
3	chr11:62539600-62542800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr11:62539600-62542800	Weak transcription	Primary hematopoietic stem cells	blood
5	chr11:62539600-62542800	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr11:62539600-62543000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr11:62539600-62543000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr11:62539600-62544800	Weak transcription	HSMMtube	muscle
9	chr11:62539600-62545400	Weak transcription	Aorta	Aorta
10	chr11:62539600-62553200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr11:62539600-62553400	Weak transcription	Stomach Mucosa	stomach
12	chr11:62539600-62553600	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr11:62539600-62553600	Weak transcription	Right Atrium	heart
14	chr11:62539800-62542600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr11:62539800-62542600	Weak transcription	Colonic Mucosa	Colon
16	chr11:62539800-62542800	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr11:62539800-62542800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr11:62539800-62542800	Weak transcription	Primary B cells from peripheral blood	blood
19	chr11:62539800-62542800	Weak transcription	Primary T cells from cord blood	blood
20	chr11:62539800-62542800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr11:62539800-62542800	Weak transcription	Brain Angular Gyrus	brain
22	chr11:62539800-62542800	Weak transcription	Brain Cingulate Gyrus	brain
23	chr11:62539800-62542800	Weak transcription	HepG2	liver
24	chr11:62539800-62543000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr11:62539800-62543000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr11:62539800-62543000	Weak transcription	Primary B cells from cord blood	blood
27	chr11:62539800-62543000	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr11:62539800-62543000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr11:62539800-62543000	Weak transcription	Adipose Nuclei	Adipose
30	chr11:62539800-62543000	Weak transcription	Brain Germinal Matrix	brain
31	chr11:62539800-62543000	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr11:62539800-62543000	Weak transcription	Left Ventricle	heart
33	chr11:62539800-62543000	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr11:62539800-62543200	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr11:62539800-62543200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr11:62539800-62543200	Weak transcription	Brain Hippocampus Middle	brain
37	chr11:62539800-62543200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr11:62539800-62543200	Weak transcription	Colon Smooth Muscle	Colon
39	chr11:62539800-62543200	Weak transcription	Duodenum Mucosa	Duodenum
40	chr11:62539800-62543200	Weak transcription	Fetal Brain Female	brain
41	chr11:62539800-62543200	Weak transcription	Rectal Smooth Muscle	rectum
42	chr11:62539800-62543200	Weak transcription	Right Ventricle	heart
43	chr11:62539800-62543200	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr11:62539800-62543200	Weak transcription	Small Intestine	intestine
45	chr11:62539800-62543200	Weak transcription	Spleen	Spleen
46	chr11:62539800-62543200	Weak transcription	NHLF	lung
47	chr11:62539800-62543200	Weak transcription	Osteobl	bone
48	chr11:62539800-62543400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr11:62539800-62543400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr11:62539800-62543400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links