Variant report

Variant	rs10880988
Chromosome Location	chr12:47098714-47098715
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	chr12:47087609..47090232-chr12:47097019..47099535,2	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1073381	0.86[ASN][1000 genomes]
rs10785636	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10785637	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10785638	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10785639	0.82[EUR][1000 genomes]
rs10880990	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10880991	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10880992	0.81[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs10880993	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10880995	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11183565	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11183566	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11183568	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11183570	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11183574	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11183578	0.85[EUR][1000 genomes]
rs11183580	1.00[ASN][1000 genomes]
rs11183584	1.00[ASN][1000 genomes]
rs11183597	0.86[ASN][1000 genomes]
rs11520328	0.93[ASN][1000 genomes]
rs12369719	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12370861	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12372653	0.93[ASN][1000 genomes]
rs2098513	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2408619	1.00[ASN][1000 genomes]
rs2408620	1.00[ASN][1000 genomes]
rs2429474	0.86[ASN][1000 genomes]
rs2430914	0.86[ASN][1000 genomes]
rs2430918	0.86[ASN][1000 genomes]
rs2430922	0.86[ASN][1000 genomes]
rs2465583	0.86[ASN][1000 genomes]
rs2465613	0.86[ASN][1000 genomes]
rs2465644	0.86[ASN][1000 genomes]
rs2715779	0.86[ASN][1000 genomes]
rs4603389	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4768748	0.81[EUR][1000 genomes]
rs6582672	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6582674	1.00[ASN][1000 genomes]
rs7136299	1.00[ASN][1000 genomes]
rs7305578	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7311780	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7975961	0.81[AMR][1000 genomes];0.93[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	nsv1049525	chr12:46721742-47264172	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
2	nsv541486	chr12:46721742-47264172	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
3	esv3416674	chr12:46988689-47178369	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv558783	chr12:46996632-47144856	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	esv1845143	chr12:47051076-47431496	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:47097000-47099000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr12:47098000-47108000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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