Variant report

Variant	rs990062
Chromosome Location	chr6:15746779-15746780
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15743873..15748458-chr6:15751737..15757129,6	MCF-7	breast:
2	chr6:15740904..15747364-chr6:15754114..15758056,5	K562	blood:
3	chr6:15745864..15748782-chr6:15755149..15758056,3	K562	blood:
4	chr6:15745202..15755569-chr6:16127641..16133691,11	K562	blood:
5	chr6:15739654..15744085-chr6:15745601..15748866,4	K562	blood:

Variant related genes	Relation type
ENSG00000007944	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs11965065	0.85[JPT][hapmap]
rs11970558	0.97[ASN][1000 genomes]
rs12110659	0.86[CHB][hapmap]
rs13202323	0.91[ASN][1000 genomes]
rs13211098	0.86[CHB][hapmap]
rs16876807	0.85[JPT][hapmap]
rs17411020	0.81[ASN][1000 genomes]
rs17476541	0.81[ASN][1000 genomes]
rs1887605	0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.81[TSI][hapmap];0.91[ASN][1000 genomes]
rs191986	0.86[CHB][hapmap];0.90[CHD][hapmap]
rs1927580	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1927581	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2002087	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2007855	0.86[CHB][hapmap];0.90[CHD][hapmap]
rs220890	0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs220891	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs220894	0.91[ASN][1000 genomes]
rs220896	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs220901	0.91[ASN][1000 genomes]
rs220908	0.88[ASN][1000 genomes]
rs398785	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs420350	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs56106152	0.97[ASN][1000 genomes]
rs56795754	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57424685	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61209665	0.85[AMR][1000 genomes]
rs62395049	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62396773	0.84[EUR][1000 genomes]
rs6914413	0.88[ASN][1000 genomes]
rs74111	0.86[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9464820	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9464821	1.00[CHB][hapmap]
rs9464828	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9476903	0.88[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9476904	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9476908	0.85[ASN][1000 genomes]
rs9476909	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9476910	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9476913	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9476930	0.86[CHB][hapmap]
rs9476932	0.86[CHB][hapmap];0.90[CHD][hapmap]
rs9476941	0.86[CHB][hapmap]

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	nsv428136	chr6:15595640-15781241	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15746000-15755200	Weak transcription	H9 Cell Line	embryonic stem cell

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