Variant report

Variant	rs73823345
Chromosome Location	chr3:24539229-24539230
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24521190..24523090-chr3:24538174..24539755,2	MCF-7	breast:
2	chr3:24535191..24540424-chr3:24558354..24564929,10	K562	blood:
3	chr3:23988541..23991177-chr3:24537846..24539360,2	K562	blood:
4	chr3:24534014..24541118-chr3:24556364..24565705,22	MCF-7	breast:

Variant related genes	Relation type
ENSG00000265028	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs17014787	0.82[AFR][1000 genomes]
rs17014855	0.82[AFR][1000 genomes]
rs17014945	0.82[AFR][1000 genomes]
rs17014965	0.82[AFR][1000 genomes]
rs3914944	1.00[AFR][1000 genomes]
rs56083972	1.00[AFR][1000 genomes]
rs56339532	1.00[AFR][1000 genomes]
rs58351306	0.91[AFR][1000 genomes]
rs61283262	1.00[AFR][1000 genomes]
rs73820018	0.82[AFR][1000 genomes]
rs73820022	0.82[AFR][1000 genomes]
rs73823309	1.00[AFR][1000 genomes]
rs73823310	0.91[AFR][1000 genomes]
rs73823329	1.00[AFR][1000 genomes]
rs73823334	1.00[AFR][1000 genomes]
rs73823339	1.00[AFR][1000 genomes]
rs73823343	1.00[AFR][1000 genomes]
rs73823347	1.00[AFR][1000 genomes]
rs73823352	1.00[AFR][1000 genomes]
rs73823368	0.82[AFR][1000 genomes]
rs73823371	0.82[AFR][1000 genomes]
rs73825636	0.91[AFR][1000 genomes]
rs73825637	0.91[AFR][1000 genomes]
rs73825638	0.91[AFR][1000 genomes]
rs73825639	0.91[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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
4	nsv999384	chr3:24525345-24656873	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24537200-24539600	Weak transcription	HSMMtube	muscle
2	chr3:24537400-24541800	Weak transcription	HSMM	muscle
3	chr3:24537400-24546400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr3:24537600-24539600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr3:24537600-24539600	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
6	chr3:24537600-24539800	Enhancers	Fetal Intestine Large	intestine
7	chr3:24537600-24542000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr3:24537800-24544400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr3:24538000-24540000	Weak transcription	Psoas Muscle	Psoas
10	chr3:24538000-24540200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr3:24538000-24541600	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr3:24538000-24542000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:24538000-24543600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr3:24538200-24539800	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr3:24538200-24539800	Enhancers	Fetal Intestine Small	intestine
16	chr3:24538200-24540200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:24538200-24540200	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr3:24538200-24540400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr3:24538200-24541200	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr3:24538200-24542200	Weak transcription	NHEK	skin
21	chr3:24538200-24542400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr3:24538200-24547000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr3:24538200-24552000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr3:24538200-24560600	Weak transcription	Aorta	Aorta
25	chr3:24538400-24540000	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr3:24538400-24540400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr3:24538400-24544200	Weak transcription	HMEC	breast
28	chr3:24538400-24549000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr3:24538800-24539600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr3:24538800-24540200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr3:24538800-24540200	Weak transcription	Pancreas	Pancrea
32	chr3:24538800-24540800	Weak transcription	Stomach Mucosa	stomach
33	chr3:24538800-24541000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
34	chr3:24538800-24541000	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr3:24539000-24540000	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr3:24539000-24540000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr3:24539000-24541000	Enhancers	HUES6 Cell Line	embryonic stem cell
38	chr3:24539000-24544400	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr3:24539000-24547400	Weak transcription	Duodenum Mucosa	Duodenum
40	chr3:24539000-24560200	Weak transcription	HepG2	liver
41	chr3:24539200-24539600	Weak transcription	K562	blood
42	chr3:24539200-24541000	Enhancers	HUES64 Cell Line	embryonic stem cell

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