Variant report

Variant	rs3122153
Chromosome Location	chr6:55076653-55076654
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:55074178..55076750-chr6:55098886..55101188,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10498801	0.88[CHB][hapmap];0.89[JPT][hapmap]
rs10948894	0.88[CHB][hapmap];0.88[JPT][hapmap]
rs12526414	0.88[CHB][hapmap];0.88[JPT][hapmap]
rs12662510	0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12663056	0.88[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs13343017	0.94[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2998995	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3006854	0.94[CEU][hapmap];0.88[CHB][hapmap];0.88[JPT][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3122148	0.94[CEU][hapmap];0.83[JPT][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3122149	0.94[CEU][hapmap];0.94[JPT][hapmap];0.80[YRI][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3122151	0.94[CEU][hapmap];0.87[CHB][hapmap];0.89[JPT][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3122152	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3134689	0.94[CEU][hapmap];0.83[CHB][hapmap];0.88[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3134690	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3134691	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3134692	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3134696	0.94[CEU][hapmap];0.88[CHB][hapmap];0.88[JPT][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3134699	0.94[CEU][hapmap];0.88[CHB][hapmap];0.88[JPT][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3134700	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3134701	0.94[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3134703	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3134708	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4236127	0.87[CHB][hapmap];0.87[JPT][hapmap]
rs59682791	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs60304167	0.81[ASN][1000 genomes]
rs6922310	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6927478	0.82[CHB][hapmap]
rs6937705	0.88[CHB][hapmap];0.88[JPT][hapmap]
rs6937878	0.88[CHB][hapmap];0.89[JPT][hapmap]
rs7775741	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7775745	0.88[CHB][hapmap]
rs9367622	0.82[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9396060	0.94[CHB][hapmap];1.00[JPT][hapmap]

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	nsv1016461	chr6:55038131-55129663	Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:55076200-55077000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:55076200-55077000	Enhancers	Hela-S3	cervix
3	chr6:55076200-55077400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr6:55076400-55077000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:55076600-55076800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr6:55076600-55077000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr6:55076600-55077000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr6:55076600-55077000	Enhancers	NH-A	brain
9	chr6:55076600-55077400	Enhancers	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links