Variant report

Variant	rs12258431
Chromosome Location	chr10:26181223-26181224
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:26178024..26180350-chr10:26180527..26183342,2	MCF-7	breast:

Extended variants
information (count: 110 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10508710	0.86[JPT][hapmap]
rs10828898	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10828899	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10828900	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11014834	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11014925	0.80[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs11014929	0.81[CHB][hapmap];0.92[JPT][hapmap]
rs11014931	0.86[JPT][hapmap]
rs11014932	0.92[JPT][hapmap]
rs11014933	0.86[JPT][hapmap]
rs11014934	0.86[JPT][hapmap]
rs11014935	0.85[JPT][hapmap]
rs11014936	0.86[JPT][hapmap]
rs11593128	0.86[JPT][hapmap]
rs11593320	0.83[JPT][hapmap]
rs12243741	0.92[JPT][hapmap]
rs12246202	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs12247318	0.90[CHB][hapmap];0.84[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12247650	0.81[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs12248210	0.87[JPT][hapmap]
rs12248769	0.85[JPT][hapmap]
rs12249006	0.86[JPT][hapmap]
rs12252546	0.84[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12252825	0.87[JPT][hapmap]
rs12253015	0.87[JPT][hapmap]
rs12260321	0.86[JPT][hapmap]
rs12262670	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs12263561	0.87[JPT][hapmap]
rs12263998	0.87[JPT][hapmap]
rs12267071	0.87[JPT][hapmap]
rs12267078	0.81[CHB][hapmap];0.87[JPT][hapmap]
rs12267297	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs12572695	0.81[ASN][1000 genomes]
rs12764282	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12765553	0.81[CHB][hapmap];0.87[JPT][hapmap]
rs12765561	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs12766250	0.80[CHB][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs12766929	0.86[JPT][hapmap]
rs12767114	0.93[JPT][hapmap]
rs12768268	0.81[ASN][1000 genomes]
rs12768879	0.86[JPT][hapmap]
rs12770421	0.81[CHB][hapmap];0.80[JPT][hapmap]
rs12770526	0.87[JPT][hapmap]
rs12770618	0.85[JPT][hapmap]
rs12771414	0.87[JPT][hapmap]
rs12773856	0.86[JPT][hapmap]
rs12775972	0.84[CEU][hapmap];0.90[CHB][hapmap]
rs12776584	0.87[JPT][hapmap]
rs12780744	0.86[JPT][hapmap]
rs12781790	0.92[JPT][hapmap]
rs12784683	0.86[JPT][hapmap]
rs1339808	0.81[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs1339809	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs1339810	0.87[JPT][hapmap]
rs1339812	0.81[CHB][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs1402436	0.87[JPT][hapmap]
rs1521029	0.85[JPT][hapmap]
rs1521030	0.86[JPT][hapmap]
rs1521032	0.86[JPT][hapmap]
rs1546701	0.81[CHB][hapmap]
rs1546702	0.87[JPT][hapmap]
rs1591906	0.87[JPT][hapmap]
rs17665883	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17666079	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs17739106	0.80[JPT][hapmap]
rs17813720	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs2090797	0.81[CHB][hapmap];0.87[JPT][hapmap]
rs2176937	0.87[JPT][hapmap]
rs2368120	0.86[JPT][hapmap]
rs34399158	0.82[ASN][1000 genomes]
rs34879813	0.86[JPT][hapmap]
rs3758441	0.86[JPT][hapmap]
rs3758443	0.87[JPT][hapmap]
rs3758444	0.87[JPT][hapmap]
rs3817419	0.86[JPT][hapmap]
rs3824700	0.86[JPT][hapmap]
rs4313469	0.87[JPT][hapmap]
rs4378287	0.93[JPT][hapmap]
rs4581343	0.87[JPT][hapmap]
rs4581344	0.85[JPT][hapmap]
rs4626968	0.84[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs4631780	0.86[JPT][hapmap]
rs5012431	0.86[JPT][hapmap]
rs7073081	0.87[JPT][hapmap]
rs7084483	0.87[JPT][hapmap]
rs7084885	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7086207	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7095668	0.87[JPT][hapmap]
rs7095982	0.85[JPT][hapmap]
rs7096274	0.93[JPT][hapmap]
rs7097387	0.86[JPT][hapmap]
rs7893838	0.87[JPT][hapmap]
rs7894301	0.85[JPT][hapmap]
rs7898544	0.81[CHB][hapmap];0.85[JPT][hapmap]
rs7899450	0.81[CHB][hapmap];0.87[JPT][hapmap]
rs7899567	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs7903913	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7905428	0.97[ASN][1000 genomes]
rs7910497	0.82[CHB][hapmap];0.83[JPT][hapmap]
rs7911700	0.88[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs7915315	0.86[JPT][hapmap]
rs7917879	0.87[JPT][hapmap]
rs7922301	0.95[ASN][1000 genomes]
rs7922392	0.95[ASN][1000 genomes]
rs949896	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894974	chr10:26028530-26322783	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1051756	chr10:26092320-26277478	Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv19878	chr10:26180284-26183269	Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a
4	esv3504390	chr10:26180932-26181311	Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a
5	esv3504391	chr10:26180985-26181252	ZNF genes & repeats Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:26178800-26184800	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr10:26180800-26184800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr10:26181000-26185600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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