Variant report

Variant	rs12189098
Chromosome Location	chr5:167301292-167301293
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10074148	0.82[JPT][hapmap]
rs11134478	0.95[LWK][hapmap];0.81[AFR][1000 genomes]
rs11134479	0.85[AFR][1000 genomes]
rs11738159	0.88[AFR][1000 genomes]
rs11951480	0.82[JPT][hapmap]
rs12109973	0.91[CEU][hapmap]
rs12522225	0.95[CEU][hapmap]
rs12716236	0.95[CEU][hapmap]
rs13172139	0.83[AFR][1000 genomes]
rs13182072	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1363204	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1363205	1.00[CEU][hapmap];0.91[JPT][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1421979	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1421982	1.00[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.96[MEX][hapmap];0.98[MKK][hapmap];0.97[TSI][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1421983	0.91[CEU][hapmap]
rs1421985	0.87[ASW][hapmap];0.85[LWK][hapmap];0.82[MKK][hapmap];0.88[AFR][1000 genomes]
rs1421987	0.81[AFR][1000 genomes]
rs1592800	0.88[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1963355	0.80[EUR][1000 genomes]
rs4632816	0.86[CEU][hapmap]
rs6555773	0.95[CEU][hapmap]
rs66804094	0.85[AFR][1000 genomes]
rs67007847	0.85[AFR][1000 genomes]
rs7380412	0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs7708105	0.82[JPT][hapmap]
rs7710122	0.82[JPT][hapmap]
rs7719650	0.95[CEU][hapmap];0.95[JPT][hapmap];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7729681	0.91[CEU][hapmap]
rs7732654	0.89[LWK][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	nsv462511	chr5:167275087-167324809	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island	2 gene(s)	inside rSNPs	diseases
2	nsv600254	chr5:167275087-167324809	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:167266600-167326200	Weak transcription	HMEC	breast
2	chr5:167281800-167301600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr5:167285600-167325600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr5:167290200-167301600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr5:167296800-167303600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr5:167298000-167311000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr5:167299200-167303000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr5:167299200-167310600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr5:167300000-167311000	Weak transcription	Fetal Lung	lung
10	chr5:167300200-167303800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr5:167300200-167308600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr5:167300800-167310600	Strong transcription	NHEK	skin

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