Variant report

Variant	rs16886094
Chromosome Location	chr6:54732628-54732629
allele	A/G
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	chr6:54581649..54583716-chr6:54731091..54732634,2	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: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs12175211	0.88[EUR][1000 genomes]
rs16886188	0.88[EUR][1000 genomes]
rs17682340	0.87[ASN][1000 genomes]
rs3813847	0.88[EUR][1000 genomes]
rs62412651	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62412652	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62412655	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62412657	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62412658	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62412659	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62414960	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62414962	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62414963	0.88[EUR][1000 genomes]
rs62416516	0.88[EUR][1000 genomes]
rs62416519	0.88[EUR][1000 genomes]
rs62416520	0.88[EUR][1000 genomes]
rs62416521	0.88[EUR][1000 genomes]
rs9357821	0.88[EUR][1000 genomes]
rs9367598	0.88[EUR][1000 genomes]
rs9370338	0.88[EUR][1000 genomes]
rs9370339	0.88[EUR][1000 genomes]
rs9370340	0.88[EUR][1000 genomes]
rs9370341	0.83[EUR][1000 genomes]
rs9382401	0.88[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	chr6:54727200-54732800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr6:54727200-54748800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:54727400-54740400	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr6:54727400-54743800	Weak transcription	Pancreas	Pancrea
8	chr6:54728600-54732800	Weak transcription	NHEK	skin
9	chr6:54729200-54733400	Weak transcription	HMEC	breast
10	chr6:54730400-54733600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr6:54730400-54735800	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr6:54730400-54743800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr6:54731000-54733400	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr6:54731200-54732800	Enhancers	Stomach Mucosa	stomach
15	chr6:54731600-54737200	Weak transcription	Hela-S3	cervix
16	chr6:54731600-54739400	Weak transcription	Duodenum Mucosa	Duodenum
17	chr6:54731800-54733400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr6:54731800-54738800	Weak transcription	Fetal Intestine Large	intestine
19	chr6:54731800-54738800	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr6:54732200-54739200	Weak transcription	Fetal Intestine Small	intestine
21	chr6:54732600-54734600	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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