Variant report

Variant	rs10962027
Chromosome Location	chr9:15417211-15417212
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:15277682..15279519-chr9:15415467..15418240,3	MCF-7	breast:
2	chr9:15211245..15212139-chr9:15416585..15417547,5	MCF-7	breast:
3	chr9:15305128..15307154-chr9:15417021..15419951,2	MCF-7	breast:
4	chr9:15104624..15105430-chr9:15416660..15417504,2	MCF-7	breast:
5	chr9:15211153..15211795-chr9:15417051..15417568,2	K562	blood:
6	chr9:15277764..15278338-chr9:15416698..15417388,2	MCF-7	breast:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10081655	1.00[CHB][hapmap]
rs10115540	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs10117968	0.85[CEU][hapmap];0.94[CHB][hapmap];0.80[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1033056	0.81[CHB][hapmap]
rs10733292	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs10738392	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs10738393	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs10738395	0.94[CHB][hapmap];0.80[JPT][hapmap]
rs10738397	0.94[CHB][hapmap];0.80[JPT][hapmap]
rs10756664	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs10756666	0.94[CHB][hapmap];0.80[JPT][hapmap]
rs1123038	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs1397214	0.88[CEU][hapmap];0.93[CHB][hapmap];0.89[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1397215	0.93[CHB][hapmap]
rs1976599	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs2175259	1.00[CHB][hapmap];0.83[CHD][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs2490867	0.94[EUR][1000 genomes]
rs2665504	0.80[CHB][hapmap];0.80[JPT][hapmap]
rs2737829	0.87[CHB][hapmap]
rs2737842	0.87[CHB][hapmap];0.80[JPT][hapmap]
rs2805008	0.92[EUR][1000 genomes]
rs4741500	1.00[CHB][hapmap]
rs4741501	0.81[JPT][hapmap]
rs4741504	0.92[CHB][hapmap]
rs4741505	0.94[CHB][hapmap];0.80[JPT][hapmap]
rs4741506	0.93[CHB][hapmap]
rs4741508	0.94[CHB][hapmap]
rs6474915	0.88[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.92[MKK][hapmap];0.90[ASN][1000 genomes]
rs6474916	1.00[CHB][hapmap]
rs6474918	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs6474923	0.92[CHB][hapmap]
rs7026910	0.92[CHB][hapmap];0.81[JPT][hapmap]
rs7026970	0.94[CHB][hapmap];0.80[JPT][hapmap]
rs7042165	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs7046713	0.94[CHB][hapmap];0.80[JPT][hapmap]
rs7341830	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7866979	0.85[ASN][1000 genomes]
rs907075	0.94[CHB][hapmap];0.80[JPT][hapmap]
rs907076	0.94[CHB][hapmap];0.80[JPT][hapmap]
rs9650682	0.94[CHB][hapmap];0.80[JPT][hapmap]
rs9650683	0.94[CHB][hapmap];0.80[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv517975	chr9:15286446-15534070	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv1030287	chr9:15332709-15458001	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv892626	chr9:15389610-15694690	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv831520	chr9:15404866-15444447	Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15416800-15418000	Enhancers	Placenta	Placenta
2	chr9:15416800-15418400	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr9:15417000-15417400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr9:15417000-15417600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr9:15417000-15417600	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr9:15417000-15417800	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr9:15417000-15417800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr9:15417000-15421800	Weak transcription	HepG2	liver
9	chr9:15417000-15422000	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr9:15417000-15422000	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr9:15417000-15422200	Weak transcription	Esophagus	oesophagus

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