Variant report

Variant	rs58297594
Chromosome Location	chr3:54379685-54379686
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:54339706..54342583-chr3:54377955..54380864,2	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs35767152	1.00[EUR][1000 genomes]
rs4077645	1.00[EUR][1000 genomes]
rs56681340	1.00[EUR][1000 genomes]
rs56754716	1.00[EUR][1000 genomes]
rs56998438	1.00[EUR][1000 genomes]
rs58614419	1.00[EUR][1000 genomes]
rs58941568	1.00[EUR][1000 genomes]
rs58970130	1.00[EUR][1000 genomes]
rs59922903	1.00[EUR][1000 genomes]
rs60207589	1.00[EUR][1000 genomes]
rs73841974	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	nsv1003621	chr3:53448934-54425322	Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv1014595	chr3:53944473-54846754	Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv817328	chr3:54250314-54380438	Enhancers Genic enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv817210	chr3:54365684-54511164	Enhancers Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:54375600-54380000	Weak transcription	Spleen	Spleen
2	chr3:54375600-54382000	Weak transcription	Hela-S3	cervix
3	chr3:54376800-54379800	Enhancers	H1 Cell Line	embryonic stem cell
4	chr3:54377000-54380400	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr3:54377000-54380600	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr3:54377200-54383200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:54377400-54380400	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr3:54377600-54380000	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr3:54377800-54383200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr3:54378000-54380000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
11	chr3:54378000-54380000	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr3:54378000-54380400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:54378200-54380600	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr3:54378400-54383200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr3:54378600-54381200	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr3:54378800-54389000	Weak transcription	Psoas Muscle	Psoas
17	chr3:54379000-54382200	Weak transcription	Fetal Lung	lung
18	chr3:54379200-54380000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr3:54379200-54383200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr3:54379600-54380200	Enhancers	H9 Cell Line	embryonic stem cell
21	chr3:54379600-54380200	Enhancers	Ovary	ovary
22	chr3:54379600-54381200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

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