Variant report

Variant	rs12942763
Chromosome Location	chr17:67225904-67225905
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr17:67225749-67226297	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:67220676..67223689-chr17:67224007..67226701,3	K562	blood:
2	chr17:67221677..67223634-chr17:67225109..67226721,2	MCF-7	breast:

Variant related genes	Relation type
ABCA10	TF binding region
ENSG00000154263	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1011549	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10491177	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11077445	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11650955	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11651815	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11651872	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11654323	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11656389	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11869324	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11871771	0.82[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12449649	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12450167	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12450522	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12450743	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12452340	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12937191	0.93[JPT][hapmap];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12938039	0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12938064	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12938097	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12941297	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12942867	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12943504	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12944980	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12945481	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12945908	0.82[AMR][1000 genomes]
rs12946566	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12946776	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12952942	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1468513	0.92[ASN][1000 genomes]
rs1550828	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1558168	0.81[ASN][1000 genomes]
rs15886	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2364996	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34334829	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34609440	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4310935	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4310936	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs471193	0.82[JPT][hapmap]
rs55773491	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs57949169	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs58634970	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9646388	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv457888	chr17:67149973-67226643	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv575931	chr17:67149973-67226643	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv575932	chr17:67149973-67327806	Genic enhancers Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv516799	chr17:67210267-67231581	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
5	nsv457889	chr17:67210992-67332355	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	n/a
6	nsv575934	chr17:67210992-67332355	ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:67144000-67236000	Weak transcription	Psoas Muscle	Psoas
2	chr17:67173400-67230000	Weak transcription	Pancreas	Pancrea
3	chr17:67207600-67247800	Weak transcription	Left Ventricle	heart
4	chr17:67213800-67230400	Weak transcription	Brain Angular Gyrus	brain
5	chr17:67215600-67239200	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr17:67215600-67249200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr17:67220400-67231200	Weak transcription	Osteobl	bone
8	chr17:67220600-67226200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr17:67223000-67235600	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr17:67224600-67248600	Weak transcription	Stomach Smooth Muscle	stomach
11	chr17:67225200-67227200	Weak transcription	Liver	Liver
12	chr17:67225200-67231600	Weak transcription	Ovary	ovary
13	chr17:67225600-67227600	Weak transcription	NHDF-Ad	bronchial

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