Variant report

Variant	rs2642280
Chromosome Location	chr10:27934156-27934157
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1168575	0.87[ASN][1000 genomes]
rs1168577	0.84[ASN][1000 genomes]
rs1168584	0.87[ASN][1000 genomes]
rs1168587	0.90[ASN][1000 genomes]
rs1177564	0.87[ASN][1000 genomes]
rs1494196	0.89[ASN][1000 genomes]
rs1494197	0.89[ASN][1000 genomes]
rs1494199	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs1494200	0.94[EUR][1000 genomes]
rs1532315	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1552879	0.94[EUR][1000 genomes]
rs1603021	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs1613987	0.82[ASN][1000 genomes]
rs1620830	0.92[ASN][1000 genomes]
rs1687721	0.87[ASN][1000 genomes]
rs1690682	0.89[ASN][1000 genomes]
rs2492907	0.89[ASN][1000 genomes]
rs2637282	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2637283	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2637300	0.94[EUR][1000 genomes]
rs2637309	0.92[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2637311	0.94[EUR][1000 genomes]
rs2637312	0.94[EUR][1000 genomes]
rs2637313	0.94[EUR][1000 genomes]
rs2637331	0.93[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs2642275	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2642277	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2642281	0.94[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs2642283	0.93[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs2642284	0.96[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs2642285	0.94[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs2642287	0.93[EUR][1000 genomes]
rs2642288	0.92[EUR][1000 genomes]
rs2642289	0.94[EUR][1000 genomes]
rs2642297	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2642298	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2642299	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2642301	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2808262	0.93[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2808263	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2808264	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2808265	0.83[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2808267	0.96[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs2808269	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2808270	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2808271	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2808272	0.89[ASN][1000 genomes]
rs2808273	0.89[ASN][1000 genomes]
rs2808277	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2808278	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2815513	0.94[EUR][1000 genomes]
rs2815514	0.94[EUR][1000 genomes]
rs2815515	0.94[EUR][1000 genomes]
rs2815517	0.94[EUR][1000 genomes]
rs2815518	0.93[EUR][1000 genomes]
rs2815520	0.94[EUR][1000 genomes]
rs2815521	0.94[EUR][1000 genomes]
rs2815522	0.94[EUR][1000 genomes]
rs2815523	0.93[EUR][1000 genomes]
rs2815524	0.94[EUR][1000 genomes]
rs2815525	0.94[EUR][1000 genomes]
rs2815526	0.94[EUR][1000 genomes]
rs2815529	0.94[EUR][1000 genomes]
rs2815530	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2815531	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2815532	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2815533	0.96[EUR][1000 genomes]
rs2815535	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2815536	0.98[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2815537	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2815538	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2815540	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2815541	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2999979	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs997462	0.94[EUR][1000 genomes]
rs997750	0.94[EUR][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	nsv550241	chr10:27569521-28025771	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	esv3368825	chr10:27864181-28043820	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv894985	chr10:27869503-27957785	Bivalent Enhancer Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv894986	chr10:27904646-27957785	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv3362263	chr10:27929908-27934180	Weak transcription Flanking Active TSS Enhancers	n/a	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27932200-27935600	Enhancers	Osteobl	bone
2	chr10:27932600-27935000	Weak transcription	Adipose Nuclei	Adipose
3	chr10:27932800-27934600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr10:27932800-27935200	Weak transcription	Rectal Smooth Muscle	rectum
5	chr10:27932800-27935400	Weak transcription	HSMM	muscle
6	chr10:27933000-27934400	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr10:27933400-27934400	Weak transcription	HSMMtube	muscle
8	chr10:27933600-27934800	Enhancers	Fetal Muscle Leg	muscle
9	chr10:27933600-27936200	Enhancers	NHDF-Ad	bronchial
10	chr10:27933800-27934400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr10:27933800-27934600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr10:27933800-27963600	Weak transcription	Ovary	ovary
13	chr10:27934000-27934400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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