Variant report

Variant	rs58432503
Chromosome Location	chr3:24541751-24541752
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr3:24541614-24541795	MCF10A-Er-Src	breast:	n/a	n/a
2	FOS	chr3:24541543-24541850	MCF10A-Er-Src	breast:	n/a	n/a
3	FOS	chr3:24541583-24541812	MCF10A-Er-Src	breast:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:24541584..24544034-chr3:24570108..24572918,2	K562	blood:
2	chr3:23957025..23958935-chr3:24541473..24544270,2	K562	blood:
3	chr3:24534871..24538119-chr3:24541667..24544858,5	MCF-7	breast:
4	chr3:24541351..24543279-chr3:24546883..24549843,2	MCF-7	breast:
5	chr3:24511274..24512903-chr3:24541620..24543538,2	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NR1D2-1	chr3:24541023-24541833	ENSG00000228791.3

No data

Variant related genes	Relation type
THRB	TF binding region
ENSG00000272554	TF binding region
ENSG00000228791	Chromatin interaction
ENSG00000174748	Chromatin interaction
ENSG00000197885	Chromatin interaction
ENSG00000151090	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs13066150	1.00[EUR][1000 genomes]
rs28396317	1.00[EUR][1000 genomes]
rs28627946	1.00[EUR][1000 genomes]
rs4330216	1.00[EUR][1000 genomes]
rs4569583	1.00[EUR][1000 genomes]
rs4858615	1.00[EUR][1000 genomes]
rs4858618	1.00[EUR][1000 genomes]
rs4858619	1.00[EUR][1000 genomes]
rs73150381	1.00[EUR][1000 genomes]
rs73152108	1.00[EUR][1000 genomes]
rs73152115	1.00[EUR][1000 genomes]
rs73152133	1.00[EUR][1000 genomes]
rs9819977	1.00[EUR][1000 genomes]
rs9822004	1.00[EUR][1000 genomes]
rs9882862	1.00[EUR][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:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24537400-24541800	Weak transcription	HSMM	muscle
2	chr3:24537400-24546400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr3:24537600-24542000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:24537800-24544400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr3:24538000-24542000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr3:24538000-24543600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr3:24538200-24542200	Weak transcription	NHEK	skin
8	chr3:24538200-24542400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr3:24538200-24547000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr3:24538200-24552000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr3:24538200-24560600	Weak transcription	Aorta	Aorta
12	chr3:24538400-24544200	Weak transcription	HMEC	breast
13	chr3:24538400-24549000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr3:24539000-24544400	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr3:24539000-24547400	Weak transcription	Duodenum Mucosa	Duodenum
16	chr3:24539000-24560200	Weak transcription	HepG2	liver
17	chr3:24539800-24543800	Weak transcription	Fetal Intestine Large	intestine
18	chr3:24540400-24543600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr3:24540400-24543600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr3:24540400-24544200	Weak transcription	Fetal Intestine Small	intestine
21	chr3:24540400-24544200	Weak transcription	K562	blood
22	chr3:24540600-24549000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr3:24541000-24543400	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr3:24541000-24544200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
25	chr3:24541000-24549000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr3:24541600-24542800	Enhancers	Muscle Satellite Cultured Cells	--
27	chr3:24541600-24545800	Weak transcription	Stomach Mucosa	stomach

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