Variant report

Variant	rs56006333
Chromosome Location	chr3:78638763-78638764
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:78638694..78639492-chr6:38940946..38941520,2	MCF-7	breast:

Extended variants
information (count: 9 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs59263017	1.00[AMR][1000 genomes]
rs61134129	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9831685	1.00[AMR][1000 genomes]
rs9865993	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877017	chr3:77881397-78670654	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv529995	chr3:78188643-78739698	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	nsv1008156	chr3:78444137-78765884	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv834743	chr3:78494263-78663600	Enhancers Strong transcription Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv1010650	chr3:78505564-78699161	Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78636000-78655600	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr3:78638000-78639000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:78638000-78639400	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr3:78638200-78639200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:78638200-78639200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr3:78638200-78639400	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr3:78638200-78639400	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr3:78638200-78639400	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr3:78638200-78639400	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr3:78638200-78639600	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr3:78638200-78639800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr3:78638400-78638800	Enhancers	Fetal Lung	lung
13	chr3:78638400-78639000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
14	chr3:78638400-78639600	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr3:78638400-78654600	Weak transcription	Fetal Brain Male	brain
16	chr3:78638600-78651400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr3:78638600-78655000	Weak transcription	Fetal Kidney	kidney
18	chr3:78638600-78655200	Weak transcription	Fetal Stomach	stomach
19	chr3:78638600-78666800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr3:78638600-78676400	Weak transcription	H9 Cell Line	embryonic stem cell

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