Variant report

Variant	rs73742854
Chromosome Location	chr6:54735383-54735384
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:54704497..54716767-chr6:54728797..54750947,71	MCF-7	breast:
2	chr6:54562484..54564963-chr6:54735331..54738094,2	MCF-7	breast:
3	chr6:54721521..54725055-chr6:54731692..54735464,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000224984	Chromatin interaction
ENSG00000168143	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10485135	1.00[EUR][1000 genomes]
rs10948865	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10948871	1.00[EUR][1000 genomes]
rs11961881	1.00[EUR][1000 genomes]
rs11964483	1.00[EUR][1000 genomes]
rs1507112	1.00[EUR][1000 genomes]
rs16886234	1.00[EUR][1000 genomes]
rs16886244	1.00[EUR][1000 genomes]
rs16886248	1.00[EUR][1000 genomes]
rs16886267	1.00[EUR][1000 genomes]
rs2062780	1.00[EUR][1000 genomes]
rs2062781	1.00[EUR][1000 genomes]
rs55954156	1.00[EUR][1000 genomes]
rs56991726	1.00[EUR][1000 genomes]
rs57287621	1.00[EUR][1000 genomes]
rs58495896	1.00[EUR][1000 genomes]
rs60013096	1.00[EUR][1000 genomes]
rs60517516	1.00[EUR][1000 genomes]
rs61632434	1.00[EUR][1000 genomes]
rs6906651	1.00[EUR][1000 genomes]
rs73431481	1.00[EUR][1000 genomes]
rs73432338	1.00[EUR][1000 genomes]
rs73432360	1.00[EUR][1000 genomes]
rs73432383	1.00[EUR][1000 genomes]
rs73434410	1.00[EUR][1000 genomes]
rs73446382	1.00[EUR][1000 genomes]
rs73742853	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73742861	1.00[EUR][1000 genomes]
rs73742862	1.00[EUR][1000 genomes]
rs73742869	1.00[EUR][1000 genomes]
rs7741045	0.88[AFR][1000 genomes]
rs7756856	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9296772	1.00[EUR][1000 genomes]
rs9464150	1.00[EUR][1000 genomes]
rs9464164	1.00[EUR][1000 genomes]
rs9464165	1.00[EUR][1000 genomes]
rs9464168	1.00[EUR][1000 genomes]
rs9464169	1.00[EUR][1000 genomes]
rs9464170	1.00[EUR][1000 genomes]
rs9475070	1.00[EUR][1000 genomes]
rs9475071	1.00[EUR][1000 genomes]
rs9475074	1.00[EUR][1000 genomes]
rs9475076	1.00[EUR][1000 genomes]
rs9475080	1.00[EUR][1000 genomes]
rs9475084	1.00[EUR][1000 genomes]
rs9475086	1.00[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	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	esv2763553	chr6:54687979-54820487	Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54725600-54737400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr6:54725600-54737600	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr6:54726600-54739600	Weak transcription	Small Intestine	intestine
4	chr6:54727200-54748800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr6:54727400-54740400	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr6:54727400-54743800	Weak transcription	Pancreas	Pancrea
7	chr6:54730400-54735800	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr6:54730400-54743800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr6:54731600-54737200	Weak transcription	Hela-S3	cervix
10	chr6:54731600-54739400	Weak transcription	Duodenum Mucosa	Duodenum
11	chr6:54731800-54738800	Weak transcription	Fetal Intestine Large	intestine
12	chr6:54731800-54738800	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr6:54732200-54739200	Weak transcription	Fetal Intestine Small	intestine
14	chr6:54734000-54735800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr6:54734400-54735800	Strong transcription	HMEC	breast
16	chr6:54734600-54737400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr6:54734600-54741800	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr6:54735000-54735400	Genic enhancers	NHEK	skin
19	chr6:54735000-54736400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
20	chr6:54735000-54737200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr6:54735000-54738200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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