Variant report

Variant	rs9474977
Chromosome Location	chr6:54594533-54594534
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:54594502..54597427-chr6:54632424..54633945,2	MCF-7	breast:
2	chr6:54591002..54596706-chr6:54709941..54714732,14	MCF-7	breast:
3	chr6:54580831..54596896-chr6:54704751..54716103,89	MCF-7	breast:
4	chr6:54588605..54590894-chr6:54594243..54596836,3	MCF-7	breast:
5	chr6:54589684..54593022-chr6:54593846..54596999,3	MCF-7	breast:
6	chr6:54594451..54596147-chr6:54739921..54742591,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168143	Chromatin interaction
ENSG00000224984	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10447377	0.82[ASN][1000 genomes]
rs10948842	0.86[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs11757171	0.80[ASN][1000 genomes]
rs11964037	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12211545	0.95[ASN][1000 genomes]
rs12215844	0.85[ASN][1000 genomes]
rs13193002	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13200833	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1359009	0.82[ASN][1000 genomes]
rs1911508	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2089411	0.93[ASN][1000 genomes]
rs2174145	0.87[EUR][1000 genomes]
rs2174735	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6459021	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6908136	0.98[ASN][1000 genomes]
rs6916681	0.87[EUR][1000 genomes]
rs6918290	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72967406	0.87[EUR][1000 genomes]
rs925057	0.98[ASN][1000 genomes]
rs9464114	0.82[ASN][1000 genomes]
rs9464116	0.89[ASN][1000 genomes]
rs9464135	0.86[EUR][1000 genomes]
rs9474940	0.82[ASN][1000 genomes]
rs9474943	0.82[ASN][1000 genomes]
rs9474944	0.85[ASN][1000 genomes]
rs9474965	0.97[ASN][1000 genomes]
rs9474972	0.81[ASN][1000 genomes]
rs9474973	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9474987	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9474991	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9885668	0.95[ASN][1000 genomes]
rs995951	0.98[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	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv885901	chr6:54588069-54635417	Enhancers Weak transcription Strong transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv885902	chr6:54588069-54656673	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54594200-54594800	Enhancers	NHEK	skin
2	chr6:54594200-54595000	Enhancers	HMEC	breast
3	chr6:54594200-54595200	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr6:54594200-54595600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr6:54594400-54595000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr6:54594400-54595600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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