Variant report

Variant	rs10829143
Chromosome Location	chr10:27236600-27236601
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10829144	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10829145	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10829147	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11015389	0.87[ASN][1000 genomes]
rs11015393	0.83[ASN][1000 genomes]
rs11015394	0.87[ASN][1000 genomes]
rs11015397	0.87[ASN][1000 genomes]
rs11015398	0.93[ASN][1000 genomes]
rs11015408	0.93[ASN][1000 genomes]
rs11015417	0.89[ASN][1000 genomes]
rs11015418	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11015419	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11015420	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11015423	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11015430	0.89[ASN][1000 genomes]
rs11015431	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11015432	0.89[ASN][1000 genomes]
rs11015434	0.89[ASN][1000 genomes]
rs12218581	0.89[ASN][1000 genomes]
rs12219637	0.89[ASN][1000 genomes]
rs12220671	0.89[ASN][1000 genomes]
rs12359444	0.89[EUR][1000 genomes]
rs12412861	0.89[ASN][1000 genomes]
rs12572726	0.92[ASN][1000 genomes]
rs12572741	0.93[ASN][1000 genomes]
rs12573020	0.93[ASN][1000 genomes]
rs12573785	0.93[ASN][1000 genomes]
rs12775377	0.89[ASN][1000 genomes]
rs12783077	0.89[ASN][1000 genomes]
rs2211443	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2488585	0.85[EUR][1000 genomes]
rs28417098	0.93[ASN][1000 genomes]
rs34163327	0.93[ASN][1000 genomes]
rs34416280	0.89[ASN][1000 genomes]
rs34694994	0.93[ASN][1000 genomes]
rs34974756	0.93[ASN][1000 genomes]
rs35213008	0.89[ASN][1000 genomes]
rs35606227	0.89[ASN][1000 genomes]
rs35945396	0.89[ASN][1000 genomes]
rs3928123	0.93[ASN][1000 genomes]
rs41279934	0.93[ASN][1000 genomes]
rs41279936	0.93[ASN][1000 genomes]
rs41279938	0.93[ASN][1000 genomes]
rs4306204	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4747579	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4749199	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4749200	0.88[ASN][1000 genomes]
rs4749201	0.90[ASN][1000 genomes]
rs4749203	0.93[ASN][1000 genomes]
rs4749204	0.93[ASN][1000 genomes]
rs4749205	0.93[ASN][1000 genomes]
rs4749206	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4749207	0.93[ASN][1000 genomes]
rs4749208	0.93[ASN][1000 genomes]
rs4749209	0.91[ASN][1000 genomes]
rs4749210	0.89[ASN][1000 genomes]
rs4749211	0.89[EUR][1000 genomes]
rs58651764	0.93[ASN][1000 genomes]
rs60658625	0.93[ASN][1000 genomes]
rs66462820	0.93[ASN][1000 genomes]
rs67387186	0.93[ASN][1000 genomes]
rs7095051	0.89[EUR][1000 genomes]
rs71483822	0.91[ASN][1000 genomes]
rs72629751	0.93[ASN][1000 genomes]
rs7475282	0.93[ASN][1000 genomes]
rs787720	0.85[EUR][1000 genomes]
rs787724	0.87[EUR][1000 genomes]
rs812014	0.85[EUR][1000 genomes]
rs9334069	0.85[AMR][1000 genomes]
rs9703520	0.89[EUR][1000 genomes]
rs9787430	0.93[ASN][1000 genomes]
rs9787434	0.93[ASN][1000 genomes]
rs9787668	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752390	chr10:27165095-27241780	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv894978	chr10:27185286-27239820	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv2753825	chr10:27223642-27241780	Enhancers Bivalent Enhancer Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	esv2754238	chr10:27223642-27241780	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	esv2750888	chr10:27225647-27241780	ZNF genes & repeats Active TSS Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv1047111	chr10:27225904-27242991	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv1036722	chr10:27225904-27243972	Bivalent Enhancer Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv1043456	chr10:27225904-27246821	Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10829143	LINC00202-1	cis	Muscle Skeletal	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27229200-27239000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr10:27235800-27237000	Weak transcription	Esophagus	oesophagus

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