Variant report

Variant	rs3843996
Chromosome Location	chr6:132055320-132055321
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:132053997..132056875-chr6:132057617..132059762,2	K562	blood:
2	chr6:132054308..132056322-chr6:132056330..132059140,2	K562	blood:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10457575	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12192518	0.85[CHB][hapmap]
rs12199015	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12199875	0.82[ASN][1000 genomes]
rs12204520	0.95[CHB][hapmap];0.80[ASN][1000 genomes]
rs12206403	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12206779	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12210900	0.95[CHB][hapmap];0.80[JPT][hapmap];0.80[ASN][1000 genomes]
rs12530416	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs17060552	0.95[CHB][hapmap];0.82[ASN][1000 genomes]
rs2270089	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2286453	0.90[CHB][hapmap]
rs28671630	0.92[ASN][1000 genomes]
rs3213693	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3213694	0.95[CHB][hapmap];0.81[ASN][1000 genomes]
rs365475	0.85[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs3778571	0.81[ASN][1000 genomes]
rs3800193	0.95[CHB][hapmap];0.82[ASN][1000 genomes]
rs3800194	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs3800195	0.95[CHB][hapmap];0.82[ASN][1000 genomes]
rs3800198	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3800199	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3800200	0.99[ASN][1000 genomes]
rs3850247	0.80[ASN][1000 genomes]
rs3850249	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs3861467	0.93[ASN][1000 genomes]
rs3861468	0.89[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3904056	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4126646	0.80[ASN][1000 genomes]
rs4897536	0.99[ASN][1000 genomes]
rs55931014	0.80[ASN][1000 genomes]
rs60507180	0.89[ASN][1000 genomes]
rs6569753	0.86[CHB][hapmap]
rs6901900	0.95[CHB][hapmap]
rs6908953	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6909448	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6922673	0.80[ASN][1000 genomes]
rs6931997	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6941622	0.92[ASN][1000 genomes]
rs73001214	0.80[ASN][1000 genomes]
rs73554727	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7738667	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7745372	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7746945	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7762879	0.84[CHB][hapmap]
rs7765347	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9321308	0.90[CHB][hapmap]
rs9483311	0.84[CHB][hapmap]
rs9483321	0.95[CHB][hapmap]
rs9483334	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9483335	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9493038	0.84[CHB][hapmap]
rs9493048	0.84[CHB][hapmap]
rs9493050	0.95[CHB][hapmap]
rs9493057	0.82[ASN][1000 genomes]
rs9493081	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9493082	0.89[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9493083	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9493084	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv515476	chr6:131615425-132228577	Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv7968	chr6:131917172-132321099	Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv830809	chr6:131953928-132126417	Bivalent Enhancer Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
4	nsv830810	chr6:131960923-132138396	Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
5	nsv886669	chr6:131991532-132059074	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:132040600-132063200	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr6:132044200-132055400	Weak transcription	Colonic Mucosa	Colon
3	chr6:132048000-132057200	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr6:132048200-132065200	Weak transcription	Liver	Liver
5	chr6:132048400-132065200	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr6:132054000-132057400	Strong transcription	Fetal Intestine Small	intestine
7	chr6:132054000-132061800	Strong transcription	HepG2	liver
8	chr6:132054400-132057600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr6:132054600-132055400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr6:132054600-132055400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr6:132055000-132055600	Enhancers	Osteobl	bone
12	chr6:132055000-132065200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr6:132055200-132055400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr6:132055200-132055600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr6:132055200-132055600	Enhancers	Muscle Satellite Cultured Cells	--
16	chr6:132055200-132055600	Enhancers	NH-A	brain
17	chr6:132055200-132060600	Weak transcription	Fetal Intestine Large	intestine
18	chr6:132055200-132065800	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links