Variant report

Variant	rs7179783
Chromosome Location	chr15:59883809-59883810
allele	C/T
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	SPI1	chr15:59883537-59883872	GM12891	blood:	n/a	chr15:59883834-59883847
2	IKZF1	chr15:59883598-59883935	GM12878	blood:	n/a	n/a
3	ATF1	chr15:59883692-59883919	K562	blood:	n/a	n/a
4	SPI1	chr15:59883439-59884000	HL-60	blood:	n/a	chr15:59883834-59883847
5	RUNX3	chr15:59883489-59883889	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
GCNT3	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs72749146	1.00[AFR][1000 genomes]
rs72749162	1.00[AFR][1000 genomes]
rs72749173	1.00[AFR][1000 genomes]
rs72751117	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72751130	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv1044442	chr15:59765724-59955587	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv542403	chr15:59765724-59955587	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv569605	chr15:59855226-59956553	Strong transcription Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv533240	chr15:59858093-59998176	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
6	nsv569606	chr15:59883809-59894636	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59880000-59884000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr15:59882400-59884200	Enhancers	Rectal Mucosa Donor 31	rectum
3	chr15:59882400-59891600	Weak transcription	Small Intestine	intestine
4	chr15:59882600-59884200	Enhancers	GM12878-XiMat	blood
5	chr15:59883000-59884200	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr15:59883000-59884400	Enhancers	Duodenum Mucosa	Duodenum
7	chr15:59883200-59884200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr15:59883200-59884200	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr15:59883200-59884200	Enhancers	Fetal Intestine Small	intestine
10	chr15:59883200-59884200	Enhancers	Stomach Mucosa	stomach
11	chr15:59883200-59884400	Enhancers	Fetal Intestine Large	intestine
12	chr15:59883200-59884600	Enhancers	Rectal Mucosa Donor 29	rectum
13	chr15:59883200-59884600	Enhancers	NHEK	skin
14	chr15:59883400-59884200	Enhancers	A549	lung
15	chr15:59883400-59884600	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr15:59883600-59884200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr15:59883600-59884200	Enhancers	Fetal Heart	heart
18	chr15:59883600-59884400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:59883600-59884400	Enhancers	HMEC	breast
20	chr15:59883600-59887200	Weak transcription	Colonic Mucosa	Colon
21	chr15:59883800-59884200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr15:59883800-59884200	Enhancers	HepG2	liver
23	chr15:59883800-59887400	Weak transcription	Sigmoid Colon	Sigmoid Colon

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