Variant report

Variant	rs12898859
Chromosome Location	chr15:62133678-62133679
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs1052306	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11071640	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs11071644	1.00[AFR][1000 genomes]
rs11555593	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11555596	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11629559	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11629598	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs11629741	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11629851	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11629900	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs11631273	0.85[EUR][1000 genomes]
rs11635880	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11636652	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11637606	0.87[EUR][1000 genomes]
rs11638455	0.86[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs12185103	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12898715	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12901036	0.98[EUR][1000 genomes]
rs12901055	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12901735	0.87[EUR][1000 genomes]
rs12902859	0.86[AFR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12905103	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12905264	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs12905403	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12907534	0.87[EUR][1000 genomes]
rs12907567	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12912477	0.87[EUR][1000 genomes]
rs12915283	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12915585	0.85[EUR][1000 genomes]
rs17238096	0.86[AFR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17303887	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17303894	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17303915	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2303405	0.85[EUR][1000 genomes]
rs34042779	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs34234705	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs34257602	1.00[AFR][1000 genomes]
rs34424197	1.00[AFR][1000 genomes]
rs34435758	0.87[EUR][1000 genomes]
rs34486946	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs34556569	1.00[AFR][1000 genomes]
rs34589937	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34646089	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs34796280	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34853395	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs34997975	0.85[EUR][1000 genomes]
rs35193906	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs35259011	1.00[AFR][1000 genomes]
rs35523559	0.87[EUR][1000 genomes]
rs35559361	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35607089	0.87[EUR][1000 genomes]
rs35633657	0.98[EUR][1000 genomes]
rs35764401	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35984535	0.87[EUR][1000 genomes]
rs36004142	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs36056548	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs36185332	0.85[EUR][1000 genomes]
rs62006964	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs62007764	0.87[EUR][1000 genomes]
rs62007768	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs62007791	1.00[AFR][1000 genomes]
rs62009074	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62009078	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62009082	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62009106	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs62009109	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs71411468	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71411469	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs71411471	0.87[EUR][1000 genomes]
rs957348	0.85[EUR][1000 genomes]
rs978141	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904284	chr15:62123600-62243197	Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv521334	chr15:62129809-62340126	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv527451	chr15:62129809-62340126	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:62132400-62159000	Weak transcription	HSMM	muscle
2	chr15:62132400-62171200	Weak transcription	HMEC	breast
3	chr15:62132800-62146600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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