Variant report

Variant	rs10020899
Chromosome Location	chr4:119981086-119981087
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	chr4:119979901..119982507-chr4:120003877..120006669,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10002998	0.87[ASN][1000 genomes]
rs10015327	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs10017724	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10021107	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1047894	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1058449	0.90[EUR][1000 genomes]
rs1058451	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1459063	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17050108	0.92[EUR][1000 genomes]
rs17050116	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17050123	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17050127	0.88[ASN][1000 genomes]
rs28411116	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28495816	0.88[EUR][1000 genomes]
rs28609814	0.92[EUR][1000 genomes]
rs28698789	0.92[EUR][1000 genomes]
rs28744401	0.91[EUR][1000 genomes]
rs3756153	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60158411	0.88[ASN][1000 genomes]
rs60779416	0.88[ASN][1000 genomes]
rs62328679	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62328680	0.99[EUR][1000 genomes]
rs62328681	0.99[EUR][1000 genomes]
rs62328710	0.90[EUR][1000 genomes]
rs62328715	0.80[EUR][1000 genomes]
rs62328716	0.89[EUR][1000 genomes]
rs62328720	0.92[EUR][1000 genomes]
rs6848910	0.88[ASN][1000 genomes]
rs9992697	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9998313	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv916641	chr4:119780023-120777320	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv948802	chr4:119844269-120208926	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
3	nsv819746	chr4:119981017-119981194	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:119967400-119994000	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr4:119970400-119981400	Weak transcription	Ovary	ovary
3	chr4:119971000-119989600	Weak transcription	Colon Smooth Muscle	Colon
4	chr4:119975800-119994000	Weak transcription	Right Ventricle	heart
5	chr4:119975800-120003000	Weak transcription	Left Ventricle	heart
6	chr4:119979200-119996400	Weak transcription	Aorta	Aorta
7	chr4:119979400-119989800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr4:119980600-119994000	Weak transcription	Stomach Smooth Muscle	stomach

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