Variant report

Variant	rs73823308
Chromosome Location	chr3:24520947-24520948
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24501079..24502650-chr3:24520705..24523033,2	MCF-7	breast:
2	chr3:24516699..24519082-chr3:24520454..24523738,3	K562	blood:
3	chr3:24497480..24499832-chr3:24520905..24522991,2	K562	blood:
4	chr3:24513555..24516625-chr3:24517777..24521528,3	MCF-7	breast:
5	chr3:24516134..24523238-chr3:24531050..24538059,11	MCF-7	breast:
6	chr3:24520353..24523433-chr3:24523948..24528616,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000151090	Chromatin interaction
ENSG00000228791	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs12488078	0.95[EUR][1000 genomes]
rs12490491	0.84[EUR][1000 genomes]
rs1865711	0.95[EUR][1000 genomes]
rs56783261	1.00[EUR][1000 genomes]
rs58274299	0.95[EUR][1000 genomes]
rs58388581	0.95[EUR][1000 genomes]
rs58932894	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs60502621	0.95[EUR][1000 genomes]
rs61063562	0.95[EUR][1000 genomes]
rs73823340	1.00[EUR][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:39 , 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	chr3:24517400-24522600	Enhancers	Liver	Liver
5	chr3:24517800-24521000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr3:24517800-24521000	Weak transcription	Pancreas	Pancrea
7	chr3:24517800-24521000	Weak transcription	HMEC	breast
8	chr3:24517800-24521200	Weak transcription	Aorta	Aorta
9	chr3:24517800-24521800	Weak transcription	Adipose Nuclei	Adipose
10	chr3:24517800-24523000	Weak transcription	Fetal Intestine Large	intestine
11	chr3:24517800-24523600	Weak transcription	Rectal Smooth Muscle	rectum
12	chr3:24517800-24523800	Weak transcription	Gastric	stomach
13	chr3:24517800-24527000	Weak transcription	Lung	lung
14	chr3:24517800-24527000	Weak transcription	Stomach Smooth Muscle	stomach
15	chr3:24517800-24527000	Weak transcription	Hela-S3	cervix
16	chr3:24517800-24528600	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr3:24517800-24529000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr3:24518000-24521400	Weak transcription	NHEK	skin
19	chr3:24519200-24521200	Weak transcription	Right Ventricle	heart
20	chr3:24519200-24521800	Weak transcription	HepG2	liver
21	chr3:24519200-24526800	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr3:24519400-24521000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr3:24519400-24521200	Weak transcription	Left Ventricle	heart
24	chr3:24519400-24525200	Weak transcription	K562	blood
25	chr3:24519400-24525400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr3:24519400-24527400	Weak transcription	Right Atrium	heart
27	chr3:24519400-24532800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
28	chr3:24519600-24521000	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr3:24519600-24521400	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr3:24520000-24521000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
31	chr3:24520400-24521400	Weak transcription	Colon Smooth Muscle	Colon
32	chr3:24520400-24521600	Strong transcription	Fetal Intestine Small	intestine
33	chr3:24520400-24523600	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr3:24520400-24525200	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr3:24520400-24525400	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr3:24520400-24529800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr3:24520600-24521000	Weak transcription	Psoas Muscle	Psoas
38	chr3:24520600-24521600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr3:24520800-24523400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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