Variant report

Variant	rs62486599
Chromosome Location	chr7:140744501-140744502
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1089265	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1091557	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1860481	0.82[EUR][1000 genomes]
rs2079829	0.82[EUR][1000 genomes]
rs246738	0.82[EUR][1000 genomes]
rs246740	0.82[EUR][1000 genomes]
rs246741	0.82[EUR][1000 genomes]
rs246742	0.82[EUR][1000 genomes]
rs246743	0.88[EUR][1000 genomes]
rs246744	0.90[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs246745	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs246746	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs38716	0.94[EUR][1000 genomes]
rs38725	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs38727	0.94[EUR][1000 genomes]
rs38728	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs38729	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs38737	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs38741	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs38743	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62486595	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6949856	0.82[EUR][1000 genomes]
rs7782666	0.82[EUR][1000 genomes]
rs7787917	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7791022	1.00[ASN][1000 genomes]
rs801118	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs801119	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs801122	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs801124	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs801126	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030195	chr7:140615828-140746345	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62486599	TMEM178B	cis	Esophagus Mucosa	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:140737200-140745000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr7:140739400-140745000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr7:140742800-140745400	Enhancers	A549	lung
4	chr7:140743400-140744800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr7:140743400-140745600	Enhancers	Osteobl	bone
6	chr7:140744000-140745000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr7:140744000-140745000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr7:140744000-140749000	Weak transcription	HSMMtube	muscle

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