Variant report

Variant	rs16863307
Chromosome Location	chr3:151034198-151034199
allele	C/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	CBX3	chr3:151034159-151034950	HCT-116	colon:	n/a	n/a
2	JUND	chr3:151034183-151034974	HCT-116	colon:	n/a	chr3:151034637-151034646 chr3:151034637-151034645 chr3:151034637-151034644 chr3:151034636-151034645
3	FOS	chr3:151033711-151034905	MCF10A-Er-Src	breast:	n/a	chr3:151034637-151034646 chr3:151034637-151034645 chr3:151034637-151034644 chr3:151034636-151034645
4	JUND	chr3:151034152-151034956	HCT-116	colon:	n/a	chr3:151034637-151034646 chr3:151034637-151034645 chr3:151034637-151034644 chr3:151034636-151034645
5	POLR2A	chr3:151031759-151034946	MCF10A-Er-Src	breast:	n/a	n/a
6	FOSL1	chr3:151034191-151034982	HCT-116	colon:	n/a	chr3:151034637-151034646 chr3:151034637-151034645 chr3:151034637-151034644 chr3:151034636-151034645
7	REST	chr3:151034117-151034687	MCF-7	breast:	n/a	n/a
8	SP1	chr3:151034178-151035022	HCT-116	colon:	n/a	n/a
9	POLR2A	chr3:151033566-151034849	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
MED12L	TF binding region

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs12106781	1.00[AMR][1000 genomes]
rs1463726	1.00[AMR][1000 genomes]
rs16846673	1.00[AMR][1000 genomes]
rs16863276	1.00[AMR][1000 genomes]
rs16863277	1.00[AMR][1000 genomes]
rs16863279	1.00[AMR][1000 genomes]
rs16863317	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16863319	1.00[AMR][1000 genomes]
rs56654214	1.00[AMR][1000 genomes]
rs58724507	1.00[AMR][1000 genomes]
rs59501054	1.00[AMR][1000 genomes]
rs60449267	1.00[AMR][1000 genomes]
rs61097635	1.00[AMR][1000 genomes]
rs73006514	1.00[AMR][1000 genomes]
rs73006560	1.00[AMR][1000 genomes]
rs73021193	1.00[AMR][1000 genomes]
rs73021198	1.00[AMR][1000 genomes]
rs73023004	1.00[AMR][1000 genomes]
rs73023014	1.00[AMR][1000 genomes]
rs73023047	1.00[AMR][1000 genomes]
rs73023066	1.00[AMR][1000 genomes]
rs73869165	1.00[AMR][1000 genomes]
rs7632688	1.00[AMR][1000 genomes]
rs7632738	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2754555	chr3:150968302-151054302	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:151002600-151044000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr3:151023200-151034600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:151027600-151034400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:151030400-151038400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr3:151031200-151034200	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr3:151031200-151038200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr3:151032200-151035200	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr3:151032200-151039200	Enhancers	Hela-S3	cervix
9	chr3:151032600-151034600	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr3:151032600-151034600	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:151032600-151034800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr3:151032600-151034800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr3:151032800-151034400	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr3:151032800-151034600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:151032800-151034800	Active TSS	HMEC	breast
16	chr3:151032800-151036000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr3:151032800-151036800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr3:151033000-151034200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr3:151033000-151035400	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr3:151033000-151036600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr3:151033000-151038000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr3:151033200-151034800	Enhancers	Muscle Satellite Cultured Cells	--
23	chr3:151033400-151034400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr3:151033400-151034600	Weak transcription	NHDF-Ad	bronchial
25	chr3:151033400-151034800	Active TSS	NHEK	skin
26	chr3:151033400-151035000	Active TSS	Breast Myoepithelial Primary Cells	Breast
27	chr3:151033400-151036400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr3:151033600-151034800	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr3:151033600-151034800	Weak transcription	Placenta	Placenta
30	chr3:151033800-151034600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr3:151033800-151034800	Enhancers	HUES6 Cell Line	embryonic stem cell
32	chr3:151033800-151034800	Enhancers	NH-A	brain
33	chr3:151034000-151034800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr3:151034000-151034800	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
35	chr3:151034000-151037600	Enhancers	HUES48 Cell Line	embryonic stem cell

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