Variant report

Variant	rs12913620
Chromosome Location	chr15:40434221-40434222
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:40433017..40434874-chr15:40436940..40438586,2	MCF-7	breast:

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs1031963	0.84[ASN][1000 genomes]
rs1031964	0.84[ASN][1000 genomes]
rs10518681	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10518682	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11070253	0.81[ASN][1000 genomes]
rs11630664	0.81[ASN][1000 genomes]
rs11631616	0.84[ASN][1000 genomes]
rs11632939	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11634034	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11634065	0.96[ASN][1000 genomes]
rs11636204	0.84[ASN][1000 genomes]
rs11636293	0.88[ASN][1000 genomes]
rs11636402	0.94[EUR][1000 genomes]
rs11637268	0.88[EUR][1000 genomes]
rs11637555	0.83[ASN][1000 genomes]
rs11638942	0.93[EUR][1000 genomes]
rs11854027	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11854103	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11854965	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12438986	0.98[EUR][1000 genomes]
rs12898627	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12898804	0.84[ASN][1000 genomes]
rs12899102	0.81[ASN][1000 genomes]
rs12899779	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12901947	0.84[ASN][1000 genomes]
rs12902191	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12902458	0.88[ASN][1000 genomes]
rs12903940	0.88[ASN][1000 genomes]
rs12905742	0.84[ASN][1000 genomes]
rs12908093	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12909888	0.84[ASN][1000 genomes]
rs12910199	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12911157	0.95[EUR][1000 genomes]
rs12912902	0.88[ASN][1000 genomes]
rs12912982	0.97[ASN][1000 genomes]
rs12913741	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12913803	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12913994	0.81[ASN][1000 genomes]
rs12915249	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12916805	0.87[ASN][1000 genomes]
rs12916901	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1471583	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1565863	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1565864	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1565865	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1565866	0.84[ASN][1000 genomes]
rs16970409	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1801376	0.94[EUR][1000 genomes]
rs1845477	0.88[ASN][1000 genomes]
rs2002425	0.84[ASN][1000 genomes]
rs2172742	0.84[ASN][1000 genomes]
rs2277559	0.95[EUR][1000 genomes]
rs2277560	0.88[ASN][1000 genomes]
rs2290551	0.84[ASN][1000 genomes]
rs2305653	0.81[ASN][1000 genomes]
rs2412480	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2412482	0.92[EUR][1000 genomes]
rs2898988	0.86[ASN][1000 genomes]
rs3214012	0.95[EUR][1000 genomes]
rs34191615	0.88[ASN][1000 genomes]
rs34358001	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34823877	0.88[ASN][1000 genomes]
rs3759839	0.84[ASN][1000 genomes]
rs3759842	0.84[ASN][1000 genomes]
rs4244573	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4244574	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4923855	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4923856	0.84[ASN][1000 genomes]
rs4923857	0.94[EUR][1000 genomes]
rs4924419	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4924420	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4924422	0.91[ASN][1000 genomes]
rs4924424	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4924425	0.91[ASN][1000 genomes]
rs4924427	0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4924428	0.84[ASN][1000 genomes]
rs4924429	0.83[ASN][1000 genomes]
rs4924430	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs492813	0.95[EUR][1000 genomes]
rs500693	0.96[EUR][1000 genomes]
rs521896	0.98[EUR][1000 genomes]
rs597752	0.98[EUR][1000 genomes]
rs62020024	0.84[ASN][1000 genomes]
rs6492932	0.93[EUR][1000 genomes]
rs6492935	0.93[EUR][1000 genomes]
rs7162894	0.85[EUR][1000 genomes]
rs7164047	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7164783	0.84[ASN][1000 genomes]
rs7169842	0.84[ASN][1000 genomes]
rs7177759	0.94[EUR][1000 genomes]
rs7180335	0.84[ASN][1000 genomes]
rs7495483	0.84[ASN][1000 genomes]
rs797420	0.95[EUR][1000 genomes]
rs8023395	0.81[ASN][1000 genomes]
rs8026738	0.81[ASN][1000 genomes]
rs8037190	0.94[EUR][1000 genomes]
rs8043080	0.84[ASN][1000 genomes]
rs811746	0.95[EUR][1000 genomes]
rs876821	0.84[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	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv428635	chr15:40274500-40436293	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	esv3423229	chr15:40417126-40447686	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv3500491	chr15:40417175-40446353	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv3500492	chr15:40417175-40446353	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40428600-40442200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr15:40433600-40435000	Enhancers	Fetal Intestine Small	intestine
3	chr15:40434000-40435200	Enhancers	Liver	Liver
4	chr15:40434200-40435000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr15:40434200-40435200	Enhancers	Fetal Intestine Large	intestine

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