Variant report

Variant	rs57281613
Chromosome Location	chr8:39966054-39966055
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	chr6:32938368..32940150-chr8:39964476..39967199,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204256	Chromatin interaction

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10282846	0.92[EUR][1000 genomes]
rs10504015	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10504016	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10504017	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12114041	0.95[EUR][1000 genomes]
rs16888751	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16888756	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16888759	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16888761	1.00[ASN][1000 genomes]
rs16888764	1.00[ASN][1000 genomes]
rs16888767	0.95[EUR][1000 genomes]
rs16888769	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16888772	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16888778	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16888781	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16888784	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16888789	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16888796	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16888801	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16888804	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16888805	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16888807	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16888813	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2013398	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28567739	0.92[EUR][1000 genomes]
rs3899741	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55644348	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55666363	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55704370	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55809387	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55952840	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56114060	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56132784	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56180191	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56185250	0.95[EUR][1000 genomes]
rs57027362	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57326886	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57611903	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57653585	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59995728	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60223559	0.92[EUR][1000 genomes]
rs60843978	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61566582	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6990154	0.92[EUR][1000 genomes]
rs6990874	0.92[EUR][1000 genomes]
rs72632077	0.92[EUR][1000 genomes]
rs72632084	0.92[EUR][1000 genomes]
rs72632085	0.92[EUR][1000 genomes]
rs72632088	0.92[EUR][1000 genomes]
rs72632098	0.92[EUR][1000 genomes]
rs72633009	1.00[EUR][1000 genomes]
rs72633010	0.95[EUR][1000 genomes]
rs72633011	1.00[EUR][1000 genomes]
rs72633012	1.00[EUR][1000 genomes]
rs72633013	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72633014	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72633015	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72633016	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72633021	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72633023	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72633024	0.95[EUR][1000 genomes]
rs72633026	0.95[EUR][1000 genomes]
rs72633034	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72633036	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72633037	0.95[EUR][1000 genomes]
rs72633038	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72633040	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72633041	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72633043	0.95[EUR][1000 genomes]
rs72633044	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72633048	0.95[EUR][1000 genomes]
rs72633054	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7813461	0.92[EUR][1000 genomes]
rs7822254	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7840924	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs976813	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9785157	0.95[EUR][1000 genomes]
rs9785159	0.95[EUR][1000 genomes]
rs9785174	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs981193	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv539555	chr8:39683857-40673606	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv534582	chr8:39884590-40653224	Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:39951000-39968000	Weak transcription	Rectal Smooth Muscle	rectum
2	chr8:39958000-39970800	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr8:39959600-39976400	Weak transcription	Pancreas	Pancrea
4	chr8:39961800-39970400	Weak transcription	Placenta	Placenta
5	chr8:39962800-39968800	Weak transcription	Esophagus	oesophagus
6	chr8:39965000-39966800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr8:39965400-39966600	Active TSS	Colon Smooth Muscle	Colon
8	chr8:39965600-39966600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr8:39965600-39966600	Active TSS	Ovary	ovary
10	chr8:39965600-39966600	Active TSS	Right Atrium	heart
11	chr8:39965800-39966200	Active TSS	Brain Hippocampus Middle	brain
12	chr8:39965800-39966400	Active TSS	Brain Angular Gyrus	brain
13	chr8:39965800-39966600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr8:39965800-39966600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr8:39965800-39966600	Active TSS	Muscle Satellite Cultured Cells	--
16	chr8:39965800-39966600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr8:39965800-39966600	Active TSS	Adipose Nuclei	Adipose
18	chr8:39965800-39966600	Active TSS	Duodenum Mucosa	Duodenum
19	chr8:39965800-39966600	Active TSS	Fetal Lung	lung
20	chr8:39965800-39966600	Active TSS	A549	lung
21	chr8:39965800-39966600	Active TSS	NHDF-Ad	bronchial
22	chr8:39966000-39966200	Active TSS	HUVEC	blood vessel
23	chr8:39966000-39966400	Active TSS	Brain Substantia Nigra	brain
24	chr8:39966000-39966400	Active TSS	Fetal Muscle Leg	muscle
25	chr8:39966000-39966400	Weak transcription	Stomach Mucosa	stomach
26	chr8:39966000-39966400	Active TSS	HMEC	breast
27	chr8:39966000-39966600	Active TSS	Duodenum Smooth Muscle	Duodenum
28	chr8:39966000-39966600	Active TSS	NHLF	lung

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