Variant report

Variant	rs61063562
Chromosome Location	chr3:24524095-24524096
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	chr3:24520353..24523433-chr3:24523948..24528616,5	MCF-7	breast:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs12488078	0.90[EUR][1000 genomes]
rs13078191	0.92[ASN][1000 genomes]
rs1865710	0.92[ASN][1000 genomes]
rs1865711	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3749376	0.85[ASN][1000 genomes]
rs55929411	0.85[ASN][1000 genomes]
rs56783261	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57622980	0.81[ASN][1000 genomes]
rs57751578	0.98[ASN][1000 genomes]
rs58274299	0.90[EUR][1000 genomes]
rs58388581	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58932894	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60502621	0.90[EUR][1000 genomes]
rs6764938	0.81[ASN][1000 genomes]
rs6765048	0.81[ASN][1000 genomes]
rs73152119	0.92[ASN][1000 genomes]
rs73823308	0.95[EUR][1000 genomes]
rs73823340	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73823342	0.89[ASN][1000 genomes]
rs73823348	0.85[ASN][1000 genomes]
rs73823356	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834641	chr3:24465862-24633738	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	nsv834642	chr3:24475558-24640593	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
3	nsv1012975	chr3:24500706-24615644	Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24499600-24526800	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr3:24509600-24531000	Weak transcription	Fetal Lung	lung
3	chr3:24515600-24533200	Weak transcription	Stomach Mucosa	stomach
4	chr3:24517800-24527000	Weak transcription	Lung	lung
5	chr3:24517800-24527000	Weak transcription	Stomach Smooth Muscle	stomach
6	chr3:24517800-24527000	Weak transcription	Hela-S3	cervix
7	chr3:24517800-24528600	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr3:24517800-24529000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:24519200-24526800	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr3:24519400-24525200	Weak transcription	K562	blood
11	chr3:24519400-24525400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr3:24519400-24527400	Weak transcription	Right Atrium	heart
13	chr3:24519400-24532800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr3:24520400-24525200	Weak transcription	Primary monocytes fromperipheralblood	blood
15	chr3:24520400-24525400	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr3:24520400-24529800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr3:24521000-24524200	Enhancers	Psoas Muscle	Psoas
18	chr3:24521400-24524400	Enhancers	Colon Smooth Muscle	Colon
19	chr3:24521400-24525600	Enhancers	Skeletal Muscle Male	skeletal muscle
20	chr3:24521400-24527400	Weak transcription	Pancreas	Pancrea
21	chr3:24521800-24525200	Weak transcription	Aorta	Aorta
22	chr3:24522000-24525200	Weak transcription	Right Ventricle	heart
23	chr3:24522000-24525400	Enhancers	Fetal Intestine Small	intestine
24	chr3:24522400-24525000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
25	chr3:24522400-24525200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr3:24522400-24525200	Weak transcription	Monocytes-CD14+_RO01746	blood
27	chr3:24522600-24526600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:24522600-24528600	Weak transcription	Adipose Nuclei	Adipose
29	chr3:24522800-24525200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr3:24523000-24524400	Enhancers	Fetal Intestine Large	intestine
31	chr3:24523000-24534000	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr3:24523200-24524200	Enhancers	Skeletal Muscle Female	skeletal muscle
33	chr3:24523400-24524200	Enhancers	Duodenum Mucosa	Duodenum
34	chr3:24523600-24524200	Enhancers	HUES64 Cell Line	embryonic stem cell
35	chr3:24523600-24524200	Enhancers	Liver	Liver
36	chr3:24523600-24524400	Enhancers	HepG2	liver
37	chr3:24523800-24524200	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
38	chr3:24523800-24524200	Enhancers	Gastric	stomach
39	chr3:24523800-24524200	Enhancers	Left Ventricle	heart
40	chr3:24523800-24527400	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr3:24524000-24524200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
42	chr3:24524000-24524200	Enhancers	Small Intestine	intestine
43	chr3:24524000-24524600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr3:24524000-24525400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
45	chr3:24524000-24527000	Weak transcription	HMEC	breast
46	chr3:24524000-24529000	Weak transcription	Rectal Smooth Muscle	rectum
47	chr3:24524000-24529400	Weak transcription	Ovary	ovary

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