Variant report

Variant	rs11032335
Chromosome Location	chr11:33686605-33686606
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10742302	0.82[JPT][hapmap]
rs10836085	0.81[CEU][hapmap]
rs10836094	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10836095	0.84[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10836097	0.83[EUR][1000 genomes]
rs1096557	0.85[EUR][1000 genomes]
rs11032332	0.84[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11032338	0.83[EUR][1000 genomes]
rs11601472	0.85[EUR][1000 genomes]
rs12226271	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12280103	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12574994	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1321015	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1321016	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2295064	0.84[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3741020	0.81[CEU][hapmap];0.82[CHB][hapmap];0.88[CHD][hapmap];0.93[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3741021	0.84[CEU][hapmap];0.82[CHB][hapmap];0.88[CHD][hapmap];0.90[GIH][hapmap];0.94[JPT][hapmap];0.91[MEX][hapmap];0.88[TSI][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3781839	0.81[CEU][hapmap];0.82[CHB][hapmap];0.88[CHD][hapmap];0.93[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7101438	0.81[CEU][hapmap];0.82[CHB][hapmap];0.88[CHD][hapmap];0.93[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832113	chr11:33609202-33767781	Transcr. at gene 5' and 3' Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11032335	RAG2	cis	parietal	SCAN
rs11032335	PRRG4	cis	cerebellum	SCAN
rs11032335	CAT	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:33657800-33688400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr11:33665800-33691600	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr11:33674000-33689800	Weak transcription	NH-A	brain
4	chr11:33674000-33690800	Weak transcription	Brain Cingulate Gyrus	brain
5	chr11:33674200-33690000	Weak transcription	Fetal Brain Male	brain
6	chr11:33674400-33690800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr11:33674400-33691400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr11:33674400-33691400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr11:33674600-33690800	Weak transcription	Psoas Muscle	Psoas
10	chr11:33674800-33700000	Weak transcription	Brain Angular Gyrus	brain
11	chr11:33675400-33687400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr11:33676000-33690800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr11:33677400-33689400	Strong transcription	Cortex derived primary cultured neurospheres	brain
14	chr11:33677800-33689200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr11:33678800-33686800	Weak transcription	Esophagus	oesophagus
16	chr11:33678800-33695400	Weak transcription	Brain Anterior Caudate	brain
17	chr11:33680000-33691400	Weak transcription	Osteobl	bone
18	chr11:33680400-33691600	Weak transcription	HSMMtube	muscle
19	chr11:33680400-33692000	Weak transcription	GM12878-XiMat	blood
20	chr11:33681000-33690400	Strong transcription	Fetal Brain Female	brain
21	chr11:33683800-33690000	Strong transcription	Brain Germinal Matrix	brain
22	chr11:33684000-33692000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr11:33684600-33689600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr11:33684800-33689400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr11:33685200-33697800	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr11:33685400-33688200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr11:33685600-33687000	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr11:33685800-33687000	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr11:33686000-33687600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr11:33686000-33691400	Weak transcription	HUVEC	blood vessel
31	chr11:33686200-33687200	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
32	chr11:33686200-33687600	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr11:33686200-33692000	Weak transcription	Pancreas	Pancrea
34	chr11:33686400-33686800	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
35	chr11:33686400-33686800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr11:33686400-33686800	Enhancers	Fetal Muscle Leg	muscle
37	chr11:33686400-33687000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr11:33686400-33687000	Enhancers	Skeletal Muscle Male	skeletal muscle
39	chr11:33686400-33687800	Enhancers	NHEK	skin
40	chr11:33686400-33688000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr11:33686600-33687600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr11:33686600-33687600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr11:33686600-33687800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr11:33686600-33687800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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