Variant report

Variant	rs11760186
Chromosome Location	chr6:13196011-13196012
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10484269	0.82[CHB][hapmap];0.88[CHD][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs1150595	0.95[CEU][hapmap]
rs1150598	0.95[CEU][hapmap]
rs1150599	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1150600	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12193156	0.95[CEU][hapmap]
rs12198274	0.95[CEU][hapmap];0.80[TSI][hapmap]
rs1223563	0.95[CEU][hapmap]
rs1232378	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12526983	0.95[CEU][hapmap]
rs13206277	0.95[CEU][hapmap]
rs3864313	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs3864314	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs3864315	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs3886292	0.86[ASN][1000 genomes]
rs3916163	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3932443	0.91[ASN][1000 genomes]
rs3932444	1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4262187	0.91[ASN][1000 genomes]
rs4280960	0.91[ASN][1000 genomes]
rs4715145	0.95[CEU][hapmap]
rs4715147	0.95[CEU][hapmap]
rs73725622	0.86[ASN][1000 genomes]
rs7746506	0.91[ASN][1000 genomes]
rs9349503	0.91[ASN][1000 genomes]
rs9367373	1.00[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs9369918	0.81[CHB][hapmap];0.91[JPT][hapmap]
rs9381820	1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs9395526	0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9395527	0.91[ASN][1000 genomes]

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	nsv600992	chr6:12961922-13218549	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
2	nsv883450	chr6:13166341-13196011	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11760186	TFAP2A	cis	parietal	SCAN
rs11760186	ELOVL2	cis	cerebellum	SCAN

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13178800-13217400	Weak transcription	Fetal Muscle Leg	muscle
2	chr6:13182000-13205400	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr6:13182000-13211800	Weak transcription	Fetal Brain Female	brain
4	chr6:13182000-13212000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr6:13182000-13230000	Weak transcription	Brain Angular Gyrus	brain
6	chr6:13183000-13207000	Weak transcription	Brain Cingulate Gyrus	brain
7	chr6:13184000-13220800	Weak transcription	Brain Germinal Matrix	brain
8	chr6:13184200-13197000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr6:13185000-13202800	Weak transcription	Brain Anterior Caudate	brain
10	chr6:13185200-13204000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr6:13185200-13205200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:13185400-13204800	Weak transcription	Lung	lung
13	chr6:13185400-13205800	Weak transcription	Aorta	Aorta
14	chr6:13185400-13205800	Weak transcription	Pancreas	Pancrea
15	chr6:13187400-13217400	Weak transcription	Right Atrium	heart
16	chr6:13191200-13204400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:13191800-13210800	Weak transcription	Fetal Heart	heart
18	chr6:13192000-13197000	Weak transcription	Left Ventricle	heart
19	chr6:13192000-13205600	Weak transcription	Right Ventricle	heart
20	chr6:13192400-13216800	Weak transcription	Fetal Intestine Small	intestine
21	chr6:13193400-13205400	Weak transcription	Primary hematopoietic stem cells	blood
22	chr6:13195400-13197600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr6:13195600-13201600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:13195600-13205000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr6:13195800-13206200	Weak transcription	Brain Hippocampus Middle	brain
26	chr6:13195800-13207400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr6:13196000-13198400	Strong transcription	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links