Variant report

Variant	rs73457824
Chromosome Location	chr6:56252197-56252198
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:56246077..56248373-chr6:56250654..56253145,3	MCF-7	breast:
2	chr6:56241738..56245167-chr6:56250105..56253808,4	MCF-7	breast:
3	chr6:56235606..56237147-chr6:56251903..56254247,2	MCF-7	breast:
4	chr6:56250438..56252744-chr6:56257720..56260496,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000124749	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	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60141508	1.00[AMR][1000 genomes]
rs60490077	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6901591	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73450945	1.00[AMR][1000 genomes]
rs73450955	1.00[AMR][1000 genomes]
rs73457817	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73457822	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73457833	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73745630	1.00[AMR][1000 genomes]
rs73745650	0.83[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:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56240400-56252400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:56240600-56252200	Weak transcription	Duodenum Mucosa	Duodenum
3	chr6:56240600-56252400	Weak transcription	Left Ventricle	heart
4	chr6:56241200-56252400	Weak transcription	Right Ventricle	heart
5	chr6:56244000-56252200	Weak transcription	Placenta	Placenta
6	chr6:56245800-56252200	Enhancers	HepG2	liver
7	chr6:56247400-56263600	Weak transcription	Small Intestine	intestine
8	chr6:56247800-56252200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:56247800-56252200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr6:56247800-56252400	Weak transcription	Pancreas	Pancrea
11	chr6:56247800-56252600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr6:56247800-56252600	Weak transcription	HMEC	breast
13	chr6:56247800-56252600	Weak transcription	NHEK	skin
14	chr6:56249800-56252200	Weak transcription	Psoas Muscle	Psoas
15	chr6:56250000-56252400	Weak transcription	Aorta	Aorta
16	chr6:56250000-56252400	Weak transcription	Gastric	stomach
17	chr6:56250000-56252600	Weak transcription	Stomach Smooth Muscle	stomach
18	chr6:56250200-56253000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:56251000-56253400	Enhancers	Colon Smooth Muscle	Colon
20	chr6:56251200-56252400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr6:56251200-56252400	Enhancers	Hela-S3	cervix
22	chr6:56251200-56252600	Enhancers	Duodenum Smooth Muscle	Duodenum
23	chr6:56251600-56253600	Enhancers	Fetal Intestine Large	intestine
24	chr6:56251600-56253600	Enhancers	Fetal Intestine Small	intestine
25	chr6:56251600-56253600	Enhancers	Rectal Smooth Muscle	rectum
26	chr6:56251600-56253600	Enhancers	Stomach Mucosa	stomach
27	chr6:56251600-56253800	Enhancers	Liver	Liver
28	chr6:56252000-56252800	Weak transcription	Pancreatic Islets	Pancreatic Islet

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