Variant report

Variant	rs58832890
Chromosome Location	chr6:133127139-133127140
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:133122629..133124869-chr6:133126190..133128532,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10457596	0.91[ASN][1000 genomes]
rs10484629	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11962883	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11964512	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12198849	0.91[ASN][1000 genomes]
rs12203977	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12204027	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12211701	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1467403	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1467404	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3813347	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61421874	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62424539	0.91[ASN][1000 genomes]
rs6569847	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6569848	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6910639	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6912936	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6915168	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6934161	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73554431	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7738071	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7758703	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7761365	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7765224	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7769051	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7770081	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9321367	0.91[ASN][1000 genomes]
rs9321371	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9399041	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9493435	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9493437	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9493438	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9493443	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9493444	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9493445	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9493446	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9493454	0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9766095	0.82[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532069	chr6:132776411-133462292	Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv1015742	chr6:132933666-133285852	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases
3	nsv886676	chr6:133111706-133168582	Flanking Active TSS Genic enhancers Enhancers Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
4	esv1806734	chr6:133125643-133168582	Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	63 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs58832890	C6orf192	Cis_1M	lymphoblastoid	RTeQTL
rs58832890	C6orf192	cis	multi-tissue	Pritchard

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133120800-133134000	Weak transcription	Pancreas	Pancrea
2	chr6:133121200-133128000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:133121200-133129000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:133121200-133133600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

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