Variant report

Variant	rs542639
Chromosome Location	chr6:54506876-54506877
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10085187	0.82[ASN][1000 genomes]
rs1018140	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1039694	0.82[ASN][1000 genomes]
rs1039695	0.82[ASN][1000 genomes]
rs10738112	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10738113	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10807478	0.82[ASN][1000 genomes]
rs10948832	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12210278	0.97[ASN][1000 genomes]
rs12662500	0.88[ASN][1000 genomes]
rs1280714	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1280716	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1354308	0.82[ASN][1000 genomes]
rs1393859	0.82[ASN][1000 genomes]
rs1395626	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1415875	0.87[ASN][1000 genomes]
rs1507111	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1572594	0.82[ASN][1000 genomes]
rs1830662	0.91[ASN][1000 genomes]
rs1983141	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2047828	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2297805	0.88[ASN][1000 genomes]
rs4094928	0.85[ASN][1000 genomes]
rs4106094	0.88[ASN][1000 genomes]
rs4715465	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4715471	0.88[ASN][1000 genomes]
rs4715473	0.82[ASN][1000 genomes]
rs58010645	0.91[ASN][1000 genomes]
rs62414317	0.88[ASN][1000 genomes]
rs6459022	0.82[ASN][1000 genomes]
rs6906010	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6907631	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6909103	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6916459	0.82[ASN][1000 genomes]
rs6928097	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6934405	0.82[ASN][1000 genomes]
rs7739195	0.88[ASN][1000 genomes]
rs7739425	0.88[ASN][1000 genomes]
rs7747427	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7759660	0.88[ASN][1000 genomes]
rs7770733	0.88[ASN][1000 genomes]
rs7771107	0.87[ASN][1000 genomes]
rs7772650	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7773277	0.82[ASN][1000 genomes]
rs925053	0.83[ASN][1000 genomes]
rs925054	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9296765	0.82[ASN][1000 genomes]
rs9296767	0.82[ASN][1000 genomes]
rs9370324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9395987	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9464125	0.88[ASN][1000 genomes]
rs9464130	0.82[ASN][1000 genomes]
rs9464131	0.82[ASN][1000 genomes]
rs9474942	0.92[ASN][1000 genomes]
rs9474954	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9474976	0.88[ASN][1000 genomes]
rs9474981	0.82[ASN][1000 genomes]
rs9474984	0.82[ASN][1000 genomes]
rs9474985	0.82[ASN][1000 genomes]
rs9474986	0.82[ASN][1000 genomes]
rs962307	0.88[ASN][1000 genomes]
rs981683	0.88[ASN][1000 genomes]
rs9918378	0.82[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	nsv427757	chr6:54296552-54507210	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1026626	chr6:54506752-54531961	Weak transcription Enhancers Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54506800-54507000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:54506800-54509400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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