Variant report

Variant	rs73457817
Chromosome Location	chr6:56244009-56244010
allele	A/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:56242114..56244288-chr6:56303044..56304750,2	MCF-7	breast:
2	chr6:56241738..56245167-chr6:56250105..56253808,4	MCF-7	breast:
3	chr6:56243554..56244650-chr6:56299649..56300712,4	MCF-7	breast:
4	chr6:56243942..56247033-chr6:56303376..56305321,3	MCF-7	breast:
5	chr6:56241662..56247297-chr6:56405930..56409718,9	MCF-7	breast:
6	chr6:56241805..56244014-chr6:56247692..56249207,2	MCF-7	breast:
7	chr6:56241466..56244174-chr6:56245136..56247766,2	MCF-7	breast:
8	chr6:56243743..56244631-chr6:56303599..56304149,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000151914	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs56346622	1.00[AMR][1000 genomes]
rs57002243	1.00[AMR][1000 genomes]
rs57085536	1.00[AMR][1000 genomes]
rs57858990	1.00[AMR][1000 genomes]
rs59478611	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60141508	1.00[AMR][1000 genomes]
rs60490077	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6901591	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73450945	1.00[AMR][1000 genomes]
rs73450955	1.00[AMR][1000 genomes]
rs73457822	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73457824	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73457833	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73745630	1.00[AMR][1000 genomes]
rs73745650	1.00[AFR][1000 genomes];1.00[AMR][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	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	nsv830666	chr6:56243743-56419599	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56240400-56246400	Weak transcription	Fetal Intestine Large	intestine
2	chr6:56240400-56246800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr6:56240400-56247400	Weak transcription	Pancreas	Pancrea
4	chr6:56240400-56252400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:56240600-56245200	Weak transcription	Adipose Nuclei	Adipose
6	chr6:56240600-56247400	Weak transcription	Aorta	Aorta
7	chr6:56240600-56252200	Weak transcription	Duodenum Mucosa	Duodenum
8	chr6:56240600-56252400	Weak transcription	Left Ventricle	heart
9	chr6:56240800-56251200	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr6:56241000-56246400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr6:56241200-56249000	Weak transcription	Psoas Muscle	Psoas
12	chr6:56241200-56249600	Weak transcription	Rectal Smooth Muscle	rectum
13	chr6:56241200-56252400	Weak transcription	Right Ventricle	heart
14	chr6:56242200-56245400	Enhancers	HepG2	liver
15	chr6:56242600-56244600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:56242800-56244400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:56243000-56244200	Enhancers	HMEC	breast
18	chr6:56243000-56244400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr6:56243200-56244200	Enhancers	NHEK	skin
20	chr6:56243400-56244400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr6:56243800-56246600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr6:56244000-56246600	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr6:56244000-56250200	Enhancers	Hela-S3	cervix
24	chr6:56244000-56251000	Weak transcription	Colon Smooth Muscle	Colon
25	chr6:56244000-56252200	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links