Variant report

Variant	rs10005901
Chromosome Location	chr4:158962902-158962903
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10003459	0.96[CEU][hapmap];0.94[CHB][hapmap];0.88[JPT][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10003566	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10005656	0.83[ASN][1000 genomes]
rs10027000	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10049927	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11100147	0.81[ASN][1000 genomes]
rs12503001	0.82[ASN][1000 genomes]
rs13106004	0.83[ASN][1000 genomes]
rs13106234	0.82[ASN][1000 genomes]
rs13137826	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28477319	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28514324	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28635553	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34237515	0.83[ASN][1000 genomes]
rs4072170	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4077776	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4388135	0.89[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.84[YRI][hapmap];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4487405	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4504305	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4521391	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4574459	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4615226	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4631100	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4691447	0.87[AMR][1000 genomes]
rs4691452	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4691460	0.87[CHB][hapmap]
rs6536298	0.81[CEU][hapmap]
rs66490968	0.87[AMR][1000 genomes]
rs6814979	0.92[CEU][hapmap];0.94[CHB][hapmap]
rs6830475	0.87[CHB][hapmap]
rs6833295	0.89[CEU][hapmap];0.88[CHB][hapmap]
rs6843728	0.96[CEU][hapmap];0.94[CHB][hapmap];0.88[JPT][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6844184	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6847800	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6848159	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7656059	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7657303	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7673290	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7682867	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7692254	0.84[CEU][hapmap];0.94[CHB][hapmap]
rs9968557	0.92[CEU][hapmap];0.94[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs9991381	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9995402	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv993476	chr4:158550643-159202015	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1030124	chr4:158758675-159251140	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv881288	chr4:158891733-159028080	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	3 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	chr4:158958800-158963400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:158958800-158963400	Weak transcription	HMEC	breast
3	chr4:158959200-158965600	Weak transcription	Pancreas	Pancrea
4	chr4:158962000-158964800	Enhancers	HSMMtube	muscle
5	chr4:158962600-158963400	Weak transcription	HUVEC	blood vessel
6	chr4:158962600-158964600	Enhancers	HSMM	muscle
7	chr4:158962800-158963000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr4:158962800-158963400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr4:158962800-158963400	Enhancers	Muscle Satellite Cultured Cells	--

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