Variant report

Variant	rs10125861
Chromosome Location	chr9:15417298-15417299
allele	A/T
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: 39 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10122299	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10962020	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2487860	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2488955	0.81[EUR][1000 genomes]
rs2488956	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2488960	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2488967	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2488968	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2490863	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2798708	0.95[AMR][1000 genomes]
rs2798710	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2798713	0.80[AMR][1000 genomes]
rs2798714	0.95[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2798715	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2798716	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2798719	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2798720	0.84[EUR][1000 genomes]
rs2798721	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2798722	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2798723	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2798724	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2798741	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2798742	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2798743	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2804994	0.85[AMR][1000 genomes]
rs2804996	0.80[AMR][1000 genomes]
rs2805000	0.95[AMR][1000 genomes]
rs2805004	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2805005	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2805006	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2805007	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28870710	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6474912	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]

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

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links