Variant report

Variant	rs17057328
Chromosome Location	chr3:56836722-56836723
allele	A/C
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	GTF2F1	chr3:56836173-56836745	Hela-S3	cervix:	n/a	n/a
2	FOXA1	chr3:56836243-56836814	HepG2	liver:	n/a	n/a
3	FOXA2	chr3:56836290-56836809	A549	lung:	n/a	n/a
4	CTCF	chr3:56835599-56836865	A549	lung:	n/a	chr3:56836325-56836343 chr3:56836320-56836341 chr3:56836681-56836702
5	MXI1	chr3:56834963-56837003	SK-N-SH	brain:	n/a	n/a
6	E2F4	chr3:56836709-56836908	MCF10A-Er-Src	breast:	n/a	n/a
7	MYC	chr3:56835935-56836746	MCF10A-Er-Src	breast:	n/a	chr3:56836079-56836086 chr3:56836077-56836087 chr3:56836118-56836127 chr3:56836031-56836041 chr3:56836076-56836085 chr3:56836078-56836087 chr3:56836077-56836088
8	FOXA1	chr3:56836323-56836723	HepG2	liver:	n/a	n/a
9	CHD2	chr3:56836707-56836752	GM12878	blood:	n/a	n/a
10	CTCF	chr3:56836580-56836730	GM12878	blood:	n/a	chr3:56836681-56836702
11	FOXA1	chr3:56836279-56836748	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
ARHGEF3	TF binding region

Extended variants
information (count: 4 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs60290840	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73833731	0.86[AFR][1000 genomes]
rs9858322	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876818	chr3:56805376-56924711	Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56834400-56836800	Flanking Active TSS	Fetal Muscle Leg	muscle
2	chr3:56835400-56836800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:56835400-56836800	Active TSS	Fetal Brain Female	brain
4	chr3:56835400-56836800	Active TSS	NHEK	skin
5	chr3:56836000-56840200	Weak transcription	Fetal Heart	heart
6	chr3:56836200-56836800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
7	chr3:56836200-56836800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
8	chr3:56836200-56836800	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
9	chr3:56836200-56836800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr3:56836200-56836800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr3:56836200-56836800	Flanking Active TSS	Adipose Nuclei	Adipose
12	chr3:56836200-56836800	Flanking Active TSS	GM12878-XiMat	blood
13	chr3:56836200-56837000	Flanking Active TSS	Dnd41	blood
14	chr3:56836400-56836800	Enhancers	H9 Cell Line	embryonic stem cell
15	chr3:56836400-56836800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
16	chr3:56836400-56836800	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr3:56836400-56836800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr3:56836400-56836800	Flanking Active TSS	Primary T cells from cord blood	blood
19	chr3:56836400-56836800	Flanking Active TSS	Primary hematopoietic stem cells	blood
20	chr3:56836400-56836800	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr3:56836400-56836800	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
22	chr3:56836400-56836800	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
23	chr3:56836400-56836800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
24	chr3:56836400-56836800	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
25	chr3:56836400-56836800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr3:56836400-56836800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr3:56836400-56836800	Flanking Active TSS	Brain Hippocampus Middle	brain
28	chr3:56836400-56836800	Bivalent Enhancer	Fetal Intestine Large	intestine
29	chr3:56836400-56836800	Active TSS	Fetal Muscle Trunk	muscle
30	chr3:56836400-56836800	Enhancers	Left Ventricle	heart
31	chr3:56836400-56836800	Enhancers	Pancreas	Pancrea
32	chr3:56836400-56836800	Enhancers	Right Ventricle	heart
33	chr3:56836400-56836800	Enhancers	Sigmoid Colon	Sigmoid Colon
34	chr3:56836400-56836800	Enhancers	Stomach Mucosa	stomach
35	chr3:56836400-56836800	Flanking Active TSS	Hela-S3	cervix
36	chr3:56836400-56836800	Flanking Active TSS	HepG2	liver
37	chr3:56836400-56836800	Flanking Active TSS	HMEC	breast
38	chr3:56836400-56836800	Enhancers	NHDF-Ad	bronchial
39	chr3:56836400-56837000	Enhancers	Liver	Liver
40	chr3:56836400-56837200	Enhancers	Fetal Stomach	stomach
41	chr3:56836400-56838000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr3:56836400-56838400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr3:56836400-56839200	Enhancers	Fetal Thymus	thymus
44	chr3:56836400-56839400	Weak transcription	Aorta	Aorta
45	chr3:56836400-56845800	Weak transcription	Lung	lung
46	chr3:56836600-56836800	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr3:56836600-56836800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr3:56836600-56836800	Enhancers	HUES48 Cell Line	embryonic stem cell
49	chr3:56836600-56836800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr3:56836600-56836800	Enhancers	Breast Myoepithelial Primary Cells	Breast

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