Variant report

Variant	rs11042902
Chromosome Location	chr11:10655623-10655624
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:10652320..10654409-chr11:10655542..10658002,2	K562	blood:

Extended variants
information (count: 32 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1035691	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs10840453	0.80[AMR][1000 genomes]
rs10840457	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap]
rs11603178	1.00[JPT][hapmap]
rs1462940	1.00[JPT][hapmap]
rs16908001	1.00[JPT][hapmap]
rs16927077	1.00[JPT][hapmap]
rs17318955	1.00[JPT][hapmap]
rs17403439	1.00[JPT][hapmap]
rs17403460	1.00[JPT][hapmap]
rs17403795	1.00[JPT][hapmap]
rs17403942	1.00[JPT][hapmap]
rs17403977	1.00[JPT][hapmap]
rs1863243	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap]
rs1863244	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs1979367	1.00[JPT][hapmap]
rs2052690	0.80[AMR][1000 genomes]
rs2052691	0.80[AMR][1000 genomes]
rs2098839	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap]
rs4025	1.00[JPT][hapmap]
rs41464450	1.00[JPT][hapmap]
rs4442541	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap]
rs4909945	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs4910160	1.00[JPT][hapmap]
rs4910165	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7936275	0.86[AMR][1000 genomes]
rs7940646	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs881869	1.00[JPT][hapmap]
rs903822	1.00[JPT][hapmap]
rs903823	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
2	nsv832063	chr11:10618485-10785281	ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11042902	STK33	cis	parietal	SCAN
rs11042902	SPON1	cis	cerebellum	SCAN
rs11042902	USP47	cis	cerebellum	SCAN

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10629400-10663600	Weak transcription	Fetal Intestine Large	intestine
2	chr11:10629600-10662800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr11:10637800-10659200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr11:10639800-10661600	Weak transcription	Gastric	stomach
5	chr11:10640600-10661400	Weak transcription	Left Ventricle	heart
6	chr11:10644000-10659600	Weak transcription	Osteobl	bone
7	chr11:10646000-10661600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr11:10646000-10679000	Weak transcription	Fetal Lung	lung
9	chr11:10646200-10661400	Weak transcription	Duodenum Mucosa	Duodenum
10	chr11:10646200-10679200	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr11:10646400-10659400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr11:10646800-10667600	Weak transcription	Right Atrium	heart
13	chr11:10647200-10659000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr11:10647400-10659200	Weak transcription	Brain Cingulate Gyrus	brain
15	chr11:10647400-10659200	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr11:10647800-10656800	Strong transcription	Aorta	Aorta
17	chr11:10647800-10658000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr11:10648000-10658400	Weak transcription	Brain Anterior Caudate	brain
19	chr11:10648000-10659200	Weak transcription	Colonic Mucosa	Colon
20	chr11:10648000-10661200	Weak transcription	Spleen	Spleen
21	chr11:10648000-10661400	Weak transcription	Adipose Nuclei	Adipose
22	chr11:10648200-10658400	Weak transcription	Brain Hippocampus Middle	brain
23	chr11:10648200-10658600	Strong transcription	Fetal Stomach	stomach
24	chr11:10648400-10659000	Weak transcription	Fetal Muscle Leg	muscle
25	chr11:10650400-10663400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr11:10650400-10678600	Weak transcription	Right Ventricle	heart
27	chr11:10651200-10656000	Weak transcription	Rectal Smooth Muscle	rectum
28	chr11:10651800-10670600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr11:10652400-10668200	Weak transcription	NHLF	lung
30	chr11:10653000-10658800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr11:10653200-10668200	Weak transcription	Esophagus	oesophagus
32	chr11:10653400-10658800	Weak transcription	Primary B cells from peripheral blood	blood
33	chr11:10653600-10657000	Weak transcription	Ovary	ovary
34	chr11:10653600-10663600	Weak transcription	Lung	lung
35	chr11:10653600-10669000	Weak transcription	Fetal Intestine Small	intestine
36	chr11:10654400-10660800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr11:10654600-10658800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr11:10654800-10658600	Weak transcription	Colon Smooth Muscle	Colon
39	chr11:10655200-10659800	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr11:10655400-10656400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr11:10655400-10659200	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr11:10655400-10661400	Weak transcription	Placenta	Placenta
43	chr11:10655600-10657000	Weak transcription	Stomach Smooth Muscle	stomach
44	chr11:10655600-10659200	Strong transcription	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links