Variant report

Variant	rs57758833
Chromosome Location	chr4:77355980-77355981
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr4:77355949-77356504	ECC-1	luminal epithelium:	n/a	n/a
2	TEAD4	chr4:77355839-77356521	ECC-1	luminal epithelium:	n/a	n/a
3	EP300	chr4:77355706-77356712	ECC-1	luminal epithelium:	n/a	chr4:77356583-77356597 chr4:77356514-77356528
4	NFIC	chr4:77355735-77356748	ECC-1	luminal epithelium:	n/a	chr4:77356209-77356226 chr4:77356209-77356225
5	STAT3	chr4:77355968-77356438	MCF10A-Er-Src	breast:	n/a	n/a
6	MAX	chr4:77355856-77356530	ECC-1	luminal epithelium:	n/a	n/a
7	TEAD4	chr4:77355911-77356415	ECC-1	luminal epithelium:	n/a	n/a
8	STAT3	chr4:77355951-77356369	MCF10A-Er-Src	breast:	n/a	n/a
9	POLR2A	chr4:77355929-77356499	PFSK-1	brain:	n/a	n/a
10	E2F4	chr4:77355965-77356245	MCF10A-Er-Src	breast:	n/a	n/a
11	MYC	chr4:77355936-77356369	MCF10A-Er-Src	breast:	n/a	n/a
12	NFIC	chr4:77355824-77356548	ECC-1	luminal epithelium:	n/a	chr4:77356209-77356226 chr4:77356209-77356225
13	FOS	chr4:77355956-77356299	MCF10A-Er-Src	breast:	n/a	n/a
14	FOXM1	chr4:77355718-77356605	ECC-1	luminal epithelium:	n/a	n/a

Variant related genes	Relation type
SHROOM3	TF binding region

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs58661348	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58772873	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60642432	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6827818	0.97[AFR][1000 genomes];1.00[AMR][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	esv2757941	chr4:77264596-77417457	Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2759262	chr4:77264596-77455405	Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:77344000-77356200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr4:77351200-77356000	Weak transcription	Liver	Liver
3	chr4:77352000-77356200	Weak transcription	Primary hematopoietic stem cells	blood
4	chr4:77352000-77356200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr4:77352000-77356200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr4:77352200-77356200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr4:77353000-77356000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr4:77353800-77357000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr4:77354000-77356000	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr4:77354000-77356000	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr4:77354000-77356000	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr4:77354200-77356200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr4:77354400-77356200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr4:77354600-77356200	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr4:77355200-77356000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr4:77355200-77356000	Enhancers	iPS-15b Cell Line	embryonic stem cell
17	chr4:77355200-77356200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr4:77355400-77356200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr4:77355400-77358800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:77355600-77356000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr4:77355600-77356000	Enhancers	Fetal Heart	heart
22	chr4:77355600-77356400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
23	chr4:77355600-77356400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
24	chr4:77355800-77356000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr4:77355800-77356000	Enhancers	Brain Germinal Matrix	brain
26	chr4:77355800-77356000	Enhancers	Hela-S3	cervix
27	chr4:77355800-77356000	Enhancers	HMEC	breast
28	chr4:77355800-77356200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr4:77355800-77356400	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
30	chr4:77355800-77356400	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
31	chr4:77355800-77356600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
32	chr4:77355800-77356600	Enhancers	Stomach Mucosa	stomach
33	chr4:77355800-77356800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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