Variant report

Variant	rs12286009
Chromosome Location	chr11:75138810-75138811
allele	A/G
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	POLR2A	chr11:75138597-75138909	HCT-116	colon:	n/a	n/a
2	POLR2A	chr11:75138739-75138889	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr11:75138588-75138907	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:75109916..75112430-chr11:75138205..75142577,6	MCF-7	breast:
2	chr11:75137530..75143776-chr11:75234822..75239544,9	MCF-7	breast:

Variant related genes	Relation type
KLHL35	TF binding region
ENSG00000158555	Chromatin interaction
ENSG00000149273	Chromatin interaction
ENSG00000206941	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11236424	1.00[AMR][1000 genomes]
rs11236425	1.00[AMR][1000 genomes]
rs11236426	1.00[AMR][1000 genomes]
rs11236443	1.00[AMR][1000 genomes]
rs11236446	1.00[AMR][1000 genomes]
rs12272513	1.00[AMR][1000 genomes]
rs12274327	1.00[AMR][1000 genomes]
rs12275690	1.00[AMR][1000 genomes]
rs12277069	1.00[AMR][1000 genomes]
rs12277708	1.00[AMR][1000 genomes]
rs12281974	1.00[AMR][1000 genomes]
rs12288089	1.00[AMR][1000 genomes]
rs12289922	1.00[AMR][1000 genomes]
rs12292511	1.00[AMR][1000 genomes]
rs12292958	1.00[AMR][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	nsv1041640	chr11:74945824-75174688	Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	94 gene(s)	inside rSNPs	diseases
2	nsv897920	chr11:75087520-75181249	Genic enhancers Bivalent Enhancer Active TSS Weak transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
3	nsv897921	chr11:75115893-75147661	Bivalent Enhancer Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv897922	chr11:75116733-75147661	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	esv3381903	chr11:75123498-75587233	Bivalent Enhancer Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases
6	nsv897923	chr11:75129007-75302855	Active TSS Weak transcription Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	56 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:75117400-75139000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr11:75118200-75139000	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr11:75118200-75139600	Weak transcription	Small Intestine	intestine
4	chr11:75119400-75139800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr11:75123400-75140000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr11:75123600-75139000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr11:75126200-75139400	Weak transcription	Esophagus	oesophagus
8	chr11:75126400-75139400	Weak transcription	Ovary	ovary
9	chr11:75126400-75139600	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr11:75126400-75140600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr11:75126600-75139000	Weak transcription	Colon Smooth Muscle	Colon
12	chr11:75126600-75139200	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr11:75129400-75141200	Weak transcription	Aorta	Aorta
14	chr11:75130200-75139000	Weak transcription	Rectal Smooth Muscle	rectum
15	chr11:75130400-75139000	Weak transcription	HMEC	breast
16	chr11:75131000-75139000	Weak transcription	NH-A	brain
17	chr11:75131200-75139400	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr11:75131400-75139000	Weak transcription	NHLF	lung
19	chr11:75132000-75139000	Weak transcription	Hela-S3	cervix
20	chr11:75133800-75139000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr11:75134000-75139400	Weak transcription	Colonic Mucosa	Colon
22	chr11:75134000-75141000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr11:75134200-75139000	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr11:75134200-75139000	Weak transcription	Duodenum Mucosa	Duodenum
25	chr11:75134200-75139400	Weak transcription	Liver	Liver
26	chr11:75134200-75141400	Weak transcription	HSMMtube	muscle
27	chr11:75134600-75139000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr11:75134600-75139000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr11:75134600-75139000	Weak transcription	Brain Cingulate Gyrus	brain
30	chr11:75134600-75139200	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr11:75134600-75139400	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr11:75134600-75140800	Weak transcription	Gastric	stomach
33	chr11:75134800-75139000	Weak transcription	Brain Angular Gyrus	brain
34	chr11:75134800-75139000	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr11:75134800-75139000	Weak transcription	K562	blood
36	chr11:75134800-75139200	Weak transcription	NHEK	skin
37	chr11:75135000-75139400	Weak transcription	Brain Hippocampus Middle	brain
38	chr11:75135200-75139000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr11:75135200-75139000	Weak transcription	Placenta	Placenta
40	chr11:75135200-75139400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr11:75135200-75139400	Weak transcription	Lung	lung
42	chr11:75135200-75140400	Weak transcription	Spleen	Spleen
43	chr11:75135400-75139000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr11:75135400-75139000	Weak transcription	Stomach Smooth Muscle	stomach
45	chr11:75135600-75139000	Weak transcription	Brain Inferior Temporal Lobe	brain
46	chr11:75135800-75139000	Weak transcription	Brain Anterior Caudate	brain
47	chr11:75136200-75139400	Weak transcription	HSMM	muscle
48	chr11:75136400-75140200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr11:75136600-75139000	Weak transcription	Right Ventricle	heart
50	chr11:75137800-75139000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links