Variant report

Variant	rs2153965
Chromosome Location	chr20:52913535-52913536
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:52910817..52913641-chr20:52926530..52928083,2	MCF-7	breast:
2	chr20:52908114..52910241-chr20:52912363..52914987,2	MCF-7	breast:
3	chr20:52912716..52914955-chr20:53070123..53071877,2	MCF-7	breast:
4	chr20:52824392..52826194-chr20:52913141..52916044,3	MCF-7	breast:
5	chr20:52911450..52915662-chr20:52921093..52925920,4	MCF-7	breast:
6	chr20:52912718..52914464-chr20:52993225..52995964,3	MCF-7	breast:
7	chr20:52765761..52766290-chr20:52913080..52913871,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000101132	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1293132	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1293137	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1293142	0.81[EUR][1000 genomes]
rs1293143	0.82[EUR][1000 genomes]
rs1293144	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1298513	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1382010	0.84[EUR][1000 genomes]
rs1542522	0.82[EUR][1000 genomes]
rs1542523	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2153964	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2185849	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2616330	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2616335	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2870320	0.82[EUR][1000 genomes]
rs292120	0.80[EUR][1000 genomes]
rs292123	0.81[EUR][1000 genomes]
rs292125	0.81[EUR][1000 genomes]
rs292126	0.81[EUR][1000 genomes]
rs292132	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs292139	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs292141	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs292143	0.84[EUR][1000 genomes]
rs292144	0.85[EUR][1000 genomes]
rs292146	0.83[EUR][1000 genomes]
rs6013944	0.83[EUR][1000 genomes]
rs6013960	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6023082	0.83[EUR][1000 genomes]
rs6097895	0.81[EUR][1000 genomes]
rs6097896	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases
2	nsv834010	chr20:52759824-52932939	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
3	nsv834011	chr20:52858341-53086042	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases
4	nsv962638	chr20:52883415-52917517	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	13 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	chr20:52910000-52915200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr20:52911400-52915000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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