Variant report

Variant	rs71560872
Chromosome Location	chr6:54718845-54718846
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:54582865..54585119-chr6:54718425..54721186,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs12196439	1.00[ASN][1000 genomes]
rs12207828	1.00[ASN][1000 genomes]
rs13190743	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13192654	1.00[ASN][1000 genomes]
rs13212537	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13218354	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13220607	1.00[ASN][1000 genomes]
rs1395638	1.00[ASN][1000 genomes]
rs1395639	1.00[ASN][1000 genomes]
rs17682062	1.00[ASN][1000 genomes]
rs239782	1.00[ASN][1000 genomes]
rs239784	1.00[ASN][1000 genomes]
rs239785	1.00[ASN][1000 genomes]
rs34317450	1.00[ASN][1000 genomes]
rs34784567	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35242257	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35332422	1.00[ASN][1000 genomes]
rs35355591	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35601036	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35776136	1.00[ASN][1000 genomes]
rs6929628	1.00[ASN][1000 genomes]
rs6930882	1.00[ASN][1000 genomes]
rs6936719	1.00[ASN][1000 genomes]
rs71560861	1.00[ASN][1000 genomes]
rs71560863	1.00[ASN][1000 genomes]
rs71560865	1.00[ASN][1000 genomes]
rs71560870	1.00[ASN][1000 genomes]
rs71560871	1.00[ASN][1000 genomes]
rs9464152	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9474993	1.00[ASN][1000 genomes]
rs9474994	1.00[ASN][1000 genomes]
rs9474998	1.00[ASN][1000 genomes]
rs9474999	1.00[ASN][1000 genomes]
rs9475000	1.00[ASN][1000 genomes]
rs9475047	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9475049	1.00[ASN][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:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54712600-54725000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr6:54713200-54720800	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr6:54713200-54721000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr6:54713200-54725600	Weak transcription	Gastric	stomach
5	chr6:54713400-54720800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr6:54713400-54720800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr6:54713400-54726400	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr6:54714800-54720400	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:54715400-54719400	Weak transcription	HMEC	breast
10	chr6:54715400-54720800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:54715400-54731200	Weak transcription	Hela-S3	cervix
12	chr6:54717000-54720000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr6:54717200-54719400	Strong transcription	NHEK	skin
14	chr6:54717400-54720400	Weak transcription	Stomach Mucosa	stomach
15	chr6:54717600-54720400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:54718600-54720200	Weak transcription	Duodenum Mucosa	Duodenum
17	chr6:54718600-54720400	Weak transcription	Fetal Intestine Large	intestine
18	chr6:54718600-54720800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:54718800-54719200	Weak transcription	Fetal Lung	lung
20	chr6:54718800-54720200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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