Variant report

Variant	rs11955430
Chromosome Location	chr5:167420296-167420297
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10039736	1.00[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11134483	0.95[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];0.90[JPT][hapmap];0.87[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11134485	0.86[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.90[GIH][hapmap];0.90[JPT][hapmap];0.80[LWK][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12522181	0.95[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12523097	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1345735	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17069646	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1821254	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1862419	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2546944	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.81[GIH][hapmap];0.90[JPT][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2546957	0.86[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.88[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.85[TSI][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2546960	0.86[CEU][hapmap];0.90[CHB][hapmap];0.88[CHD][hapmap];0.88[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2569047	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];0.90[JPT][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2617956	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2617963	0.95[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs2617981	0.90[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs55859018	0.81[ASN][1000 genomes]
rs6890434	0.84[ASW][hapmap];0.86[CEU][hapmap];0.87[LWK][hapmap];0.83[MEX][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs730256	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs889067	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs889068	0.83[CEU][hapmap]
rs985650	0.91[CEU][hapmap];0.95[CHB][hapmap];0.83[GIH][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs992047	0.95[CEU][hapmap];0.82[EUR][1000 genomes];0.86[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	nsv830546	chr5:167303135-167456271	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:167397200-167420800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:167413800-167432000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr5:167417200-167426400	Weak transcription	HSMM	muscle
4	chr5:167418400-167421600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
5	chr5:167418600-167420800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr5:167418600-167426000	Weak transcription	Fetal Lung	lung
7	chr5:167418800-167421200	Weak transcription	Esophagus	oesophagus
8	chr5:167419200-167423400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr5:167419200-167428000	Weak transcription	Brain Anterior Caudate	brain
10	chr5:167419400-167420800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr5:167419800-167420400	Weak transcription	HMEC	breast
12	chr5:167419800-167420400	Strong transcription	NHEK	skin
13	chr5:167419800-167421000	Strong transcription	Right Ventricle	heart
14	chr5:167419800-167424600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr5:167420000-167423400	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr5:167420200-167420800	Weak transcription	Left Ventricle	heart

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