Variant report

Variant	rs62405861
Chromosome Location	chr6:33461200-33461201
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:33420766..33424132-chr6:33458330..33461358,3	MCF-7	breast:
2	chr20:52521312..52523443-chr6:33459372..33461546,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000213588	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs11752501	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11752508	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11755542	0.87[EUR][1000 genomes]
rs11757035	0.89[EUR][1000 genomes]
rs11757081	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11757738	0.92[EUR][1000 genomes]
rs11759461	0.90[EUR][1000 genomes]
rs35131737	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3857557	0.85[EUR][1000 genomes]
rs55659258	0.90[EUR][1000 genomes]
rs55683509	0.90[EUR][1000 genomes]
rs55782090	0.88[EUR][1000 genomes]
rs56002904	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56069946	0.82[EUR][1000 genomes]
rs62405860	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62405865	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62405866	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62405867	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62405869	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62405887	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62405891	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62405895	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62405896	0.90[EUR][1000 genomes]
rs62405898	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62405899	0.89[EUR][1000 genomes]
rs62405926	0.89[EUR][1000 genomes]
rs6911036	0.90[EUR][1000 genomes]
rs6942274	0.90[EUR][1000 genomes]
rs7743064	0.90[EUR][1000 genomes]
rs7743178	0.90[EUR][1000 genomes]
rs7743445	0.90[EUR][1000 genomes]
rs7748370	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830637	chr6:33329365-33510704	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv602832	chr6:33382241-33520221	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62405861	BAK1	cis	Esophagus Mucosa	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33453000-33474000	Weak transcription	Right Atrium	heart
2	chr6:33458800-33462600	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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