Variant report

Variant	rs12854092
Chromosome Location	chr13:90008600-90008601
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:90007666..90009633-chr13:90010115..90012279,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1023806	0.94[CHB][hapmap];0.86[JPT][hapmap]
rs1034231	0.86[ASN][1000 genomes]
rs11618429	0.86[ASN][1000 genomes]
rs11839164	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1334201	0.86[ASN][1000 genomes]
rs1334202	0.83[ASN][1000 genomes]
rs1334206	0.94[CHB][hapmap];0.97[CHD][hapmap];0.86[JPT][hapmap];0.80[LWK][hapmap];0.88[MEX][hapmap]
rs1360716	0.87[ASN][1000 genomes]
rs1413463	0.94[CHB][hapmap];0.86[JPT][hapmap]
rs2044348	0.94[CHB][hapmap];0.86[JPT][hapmap]
rs2089113	0.95[ASN][1000 genomes]
rs2102238	0.86[ASN][1000 genomes]
rs314530	0.85[CHD][hapmap];0.86[JPT][hapmap]
rs314531	0.89[CHB][hapmap];0.97[CHD][hapmap];0.86[JPT][hapmap]
rs314572	0.86[JPT][hapmap]
rs314574	0.89[CHB][hapmap];0.86[JPT][hapmap]
rs4773467	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6492425	0.83[ASN][1000 genomes]
rs6492426	0.83[ASN][1000 genomes]
rs6492427	0.83[ASN][1000 genomes]
rs6492428	0.89[ASN][1000 genomes]
rs7139784	0.84[ASN][1000 genomes]
rs7317403	0.86[ASN][1000 genomes]
rs7332403	0.84[ASN][1000 genomes]
rs7332816	0.84[ASN][1000 genomes]
rs7335222	0.86[MKK][hapmap]
rs9301560	0.89[ASN][1000 genomes]
rs9515558	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9515559	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9522506	0.83[ASN][1000 genomes]
rs9522507	0.83[ASN][1000 genomes]
rs9522509	0.83[ASN][1000 genomes]
rs9522512	0.86[ASN][1000 genomes]
rs9522513	0.86[ASN][1000 genomes]
rs9522514	0.86[ASN][1000 genomes]
rs9522515	0.82[ASN][1000 genomes]
rs9522516	0.86[ASN][1000 genomes]
rs9522517	0.86[ASN][1000 genomes]
rs9522518	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9522520	0.85[ASN][1000 genomes]
rs9522527	0.86[ASN][1000 genomes]
rs9522536	0.89[ASN][1000 genomes]
rs9560295	0.84[TSI][hapmap]
rs991342	0.83[ASN][1000 genomes]
rs991343	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915862	chr13:89408920-90118030	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1040210	chr13:89584630-90156186	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1048574	chr13:89650680-90232894	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv832676	chr13:89941212-90090424	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv900859	chr13:89944833-90036166	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1044807	chr13:89991827-90263328	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv1039775	chr13:89995537-90260944	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:90005000-90010600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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