Variant report

Variant	rs9393882
Chromosome Location	chr6:28024422-28024423
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28024259..28026067-chr6:28029908..28032132,2	K562	blood:
2	chr6:28023183..28024935-chr6:43739349..43741266,2	K562	blood:
3	chr6:27856950..27859637-chr6:28022500..28024631,2	K562	blood:
4	chr6:28024391..28026984-chr6:28098604..28100531,2	MCF-7	breast:
5	chr6:28022742..28025114-chr6:28059303..28061030,2	K562	blood:

Variant related genes	Relation type
ENSG00000219891	Chromatin interaction
ENSG00000197153	Chromatin interaction
ENSG00000112715	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1015075	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap]
rs12055625	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1321504	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1321505	1.00[CHB][hapmap]
rs149943	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs149990	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs16893573	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs16893601	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap]
rs16893735	1.00[CHB][hapmap]
rs202906	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs3734571	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs3757188	1.00[CHB][hapmap];0.90[CHD][hapmap]
rs4713138	1.00[CHB][hapmap]
rs4713139	1.00[CHB][hapmap];0.90[CHD][hapmap]
rs4713140	1.00[CHB][hapmap];0.90[CHD][hapmap]
rs735765	0.85[CHD][hapmap]
rs904142	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs9348789	0.90[JPT][hapmap]
rs9348792	0.83[AMR][1000 genomes]
rs9368537	1.00[CEU][hapmap]
rs9380028	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs9380030	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs9380031	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs9380032	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs9380041	1.00[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs9380045	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs9380051	1.00[CHB][hapmap];0.90[CHD][hapmap]
rs9380064	1.00[CHB][hapmap];0.90[CHD][hapmap]
rs9393889	0.82[AMR][1000 genomes]
rs9393902	1.00[CHB][hapmap];0.90[CHD][hapmap]
rs9468271	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs9468275	1.00[CEU][hapmap];0.91[JPT][hapmap]
rs9468287	1.00[CHB][hapmap];0.90[CHD][hapmap]

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	nsv830619	chr6:27872302-28062544	Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
2	nsv883513	chr6:27982152-28033087	Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv966688	chr6:28019147-28028399	Bivalent Enhancer	TF binding region Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9393882	HIST1H4J	cis	lymphoblastoid	seeQTL

Chromatin state (count:0 , 50 per page) page:

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