Variant report

Variant	rs362531
Chromosome Location	chr6:29530455-29530456
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:41464180..41467868-chr6:29527999..29530999,6	K562	blood:
2	chr3:73159072..73161621-chr6:29527999..29530999,8	K562	blood:
3	chr6:29522180..29525173-chr6:29530148..29533941,3	K562	blood:
4	chr3:73159072..73161626-chr6:29527999..29530999,7	K562	blood:
5	chr1:3268538..3270061-chr6:29529499..29531019,2	K562	blood:

Variant related genes	Relation type
ENSG00000223247	Chromatin interaction
ENSG00000188825	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11970406	0.85[ASN][1000 genomes]
rs11970429	0.88[ASN][1000 genomes]
rs11970475	0.88[ASN][1000 genomes]
rs16894964	0.84[ASN][1000 genomes]
rs16895067	0.88[ASN][1000 genomes]
rs16895070	0.85[ASN][1000 genomes]
rs17184114	0.88[ASN][1000 genomes]
rs17184255	0.88[ASN][1000 genomes]
rs2076484	0.88[ASN][1000 genomes]
rs2076486	0.88[ASN][1000 genomes]
rs2076487	0.88[ASN][1000 genomes]
rs2272991	0.88[ASN][1000 genomes]
rs2294744	0.88[ASN][1000 genomes]
rs3025657	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3025669	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs362532	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57241384	0.83[ASN][1000 genomes]
rs58008302	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59731351	0.88[ASN][1000 genomes]
rs59802757	0.88[ASN][1000 genomes]
rs60219685	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs64036	0.85[ASN][1000 genomes]
rs6456964	0.82[ASN][1000 genomes]
rs6908631	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6915177	0.88[ASN][1000 genomes]
rs6920668	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6925744	0.85[ASN][1000 genomes]
rs6931702	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6933331	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72500877	0.85[ASN][1000 genomes]
rs73402748	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73402770	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73402788	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7739905	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7739937	0.99[AFR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7757931	0.88[ASN][1000 genomes]
rs9258004	0.88[ASN][1000 genomes]
rs9258130	0.91[ASN][1000 genomes]
rs9258132	0.91[ASN][1000 genomes]
rs9461536	0.85[ASN][1000 genomes]
rs9461538	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv5239	chr6:29527407-29566446	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs362531	HLA-F	cis	lymphoblastoid	seeQTL

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29529000-29531200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr6:29529000-29531200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:29530000-29531000	Weak transcription	GM12878-XiMat	blood

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