Variant report

Variant	rs1901382
Chromosome Location	chr6:56897408-56897409
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:56894040..56895586-chr6:56895954..56897715,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs1157713	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12190416	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12190434	0.83[EUR][1000 genomes]
rs1993118	0.97[ASN][1000 genomes]
rs2100305	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3996929	0.83[EUR][1000 genomes]
rs3996933	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3996937	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4715646	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61740375	0.89[ASN][1000 genomes]
rs62415861	0.89[ASN][1000 genomes]
rs62415862	0.89[ASN][1000 genomes]
rs62415863	0.89[ASN][1000 genomes]
rs62415864	0.84[ASN][1000 genomes]
rs62417430	0.97[ASN][1000 genomes]
rs6913707	0.82[EUR][1000 genomes]
rs6926980	0.83[EUR][1000 genomes]
rs6929783	0.83[EUR][1000 genomes]
rs7743855	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7753537	0.81[EUR][1000 genomes]
rs7753927	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7763570	0.83[EUR][1000 genomes]
rs8180538	0.83[EUR][1000 genomes]
rs9296860	0.84[ASN][1000 genomes]
rs9349843	0.83[EUR][1000 genomes]
rs9357936	0.82[ASN][1000 genomes]
rs9367704	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9370559	0.84[ASN][1000 genomes]
rs9396254	0.82[ASN][1000 genomes]
rs9396255	0.97[ASN][1000 genomes]
rs9396259	0.81[EUR][1000 genomes]
rs9475768	0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv533050	chr6:56504480-57297586	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1021651	chr6:56569444-56966319	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv538228	chr6:56569444-56966319	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	esv3430228	chr6:56830972-57079281	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1901382	BEND6	cis	Esophagus Muscularis	GTEx
rs1901382	KIAA1586	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56878600-56905400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr6:56896800-56899400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr6:56897000-56899400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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