Variant report

Variant	rs11196805
Chromosome Location	chr10:116375134-116375135
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	CTCF	chr10:116375000-116375270	RPTEC	kidney:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:116372918..116375665-chr10:116413630..116415151,2	MCF-7	breast:

Variant related genes	Relation type
ABLIM1	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10885587	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10885588	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10885591	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10885592	0.88[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10885593	0.83[AMR][1000 genomes]
rs11196811	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11196812	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11196815	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11196817	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11196818	1.00[CEU][hapmap];0.91[CHB][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11196820	1.00[CEU][hapmap];0.91[CHB][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11196829	0.88[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11196831	0.88[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11196832	0.88[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11196833	0.88[CEU][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11196834	0.88[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11196836	0.87[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11196838	0.88[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11196839	0.88[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11196842	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11196846	0.85[CEU][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12161653	0.87[CEU][hapmap];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12219039	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12571734	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12572646	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12573191	0.87[CEU][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1333689	0.89[CEU][hapmap];0.90[CHB][hapmap];0.86[ASN][1000 genomes]
rs17092202	0.88[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17092207	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17092213	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17092218	0.88[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17092220	0.88[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17092237	0.88[CEU][hapmap]
rs2497668	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2497681	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs2497682	0.87[CEU][hapmap];0.82[EUR][1000 genomes]
rs4447090	0.88[CEU][hapmap];0.85[AMR][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	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv949138	chr10:116311531-116874477	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	nsv1038050	chr10:116315109-116895719	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv533027	chr10:116344641-116856352	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116345000-116382400	Weak transcription	HSMM	muscle
2	chr10:116354800-116378600	Weak transcription	Fetal Stomach	stomach
3	chr10:116360600-116380600	Weak transcription	Primary hematopoietic stem cells	blood
4	chr10:116361400-116379000	Weak transcription	Fetal Muscle Trunk	muscle
5	chr10:116361600-116378200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr10:116365000-116382400	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr10:116365400-116380600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr10:116365400-116382400	Weak transcription	Brain Hippocampus Middle	brain
9	chr10:116365600-116378400	Weak transcription	Aorta	Aorta
10	chr10:116365800-116378400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr10:116365800-116382000	Weak transcription	Gastric	stomach
12	chr10:116367800-116382600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr10:116368600-116376400	Enhancers	Liver	Liver
14	chr10:116368600-116376400	Enhancers	Right Atrium	heart
15	chr10:116370600-116382600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr10:116371000-116376200	Enhancers	Stomach Mucosa	stomach
17	chr10:116371400-116376600	Enhancers	Right Ventricle	heart
18	chr10:116371600-116375600	Weak transcription	NHDF-Ad	bronchial
19	chr10:116371800-116382400	Weak transcription	HMEC	breast
20	chr10:116372000-116382400	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr10:116372000-116383600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr10:116372200-116382200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr10:116372400-116375400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr10:116372400-116382200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr10:116372400-116382600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr10:116373200-116376400	Enhancers	Sigmoid Colon	Sigmoid Colon
27	chr10:116373400-116375200	Enhancers	Pancreas	Pancrea
28	chr10:116373400-116376200	Enhancers	Small Intestine	intestine
29	chr10:116373600-116375600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr10:116373600-116375800	Enhancers	Rectal Mucosa Donor 29	rectum
31	chr10:116373600-116376400	Enhancers	Rectal Mucosa Donor 31	rectum
32	chr10:116373800-116375400	Weak transcription	Brain Anterior Caudate	brain
33	chr10:116373800-116375800	Weak transcription	Pancreatic Islets	Pancreatic Islet
34	chr10:116373800-116378400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr10:116374200-116375200	Weak transcription	Adipose Nuclei	Adipose
36	chr10:116374200-116375200	Weak transcription	Fetal Heart	heart
37	chr10:116374200-116376000	Weak transcription	Esophagus	oesophagus
38	chr10:116374400-116375200	Weak transcription	Fetal Intestine Large	intestine
39	chr10:116374400-116378200	Weak transcription	HSMMtube	muscle
40	chr10:116374400-116382000	Weak transcription	HepG2	liver
41	chr10:116374400-116382400	Weak transcription	Duodenum Mucosa	Duodenum
42	chr10:116374400-116382400	Weak transcription	Fetal Intestine Small	intestine
43	chr10:116375000-116375200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr10:116375000-116375200	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr10:116375000-116375200	Enhancers	Stomach Smooth Muscle	stomach
46	chr10:116375000-116375200	Enhancers	A549	lung
47	chr10:116375000-116375400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
48	chr10:116375000-116375600	Enhancers	Primary B cells from peripheral blood	blood
49	chr10:116375000-116375800	Enhancers	Brain Inferior Temporal Lobe	brain
50	chr10:116375000-116375800	Enhancers	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links