Variant report

Variant	rs9839802
Chromosome Location	chr3:111257587-111257588
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	FOS	chr3:111257475-111257817	MCF10A-Er-Src	breast:	n/a	n/a
2	FOS	chr3:111257500-111257791	MCF10A-Er-Src	breast:	n/a	n/a
3	SPI1	chr3:111257576-111258073	HL-60	blood:	n/a	n/a
4	JUND	chr3:111257442-111257803	Hela-S3	cervix:	n/a	chr3:111257626-111257637
5	JUND	chr3:111257517-111257782	HepG2	liver:	n/a	chr3:111257626-111257637
6	FOS	chr3:111257491-111257799	MCF10A-Er-Src	breast:	n/a	n/a
7	FOS	chr3:111257451-111257792	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
CD96	TF binding region

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

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs12493058	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12494356	0.83[ASN][1000 genomes]
rs1391358	0.84[ASN][1000 genomes]
rs16858215	0.95[EUR][1000 genomes]
rs16858229	0.95[EUR][1000 genomes]
rs968910	0.83[ASN][1000 genomes]
rs9855343	0.91[ASN][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	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv997756	chr3:111226058-111376585	Active TSS Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv3946	chr3:111236035-111283038	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111254200-111257800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr3:111254800-111257600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr3:111255200-111258000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr3:111255800-111264400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr3:111256200-111257600	Weak transcription	Small Intestine	intestine
6	chr3:111257000-111257600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
7	chr3:111257000-111257800	Enhancers	Primary T cells from cord blood	blood
8	chr3:111257000-111258400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr3:111257000-111258400	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr3:111257200-111257800	Enhancers	Primary T helper cells PMA-I stimulated	--
11	chr3:111257200-111257800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
12	chr3:111257200-111257800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr3:111257200-111258000	Enhancers	Primary T helper naive cells from peripheral blood	blood
14	chr3:111257200-111258000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr3:111257200-111258000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
16	chr3:111257200-111258200	Enhancers	Primary T killer memory cells from peripheral blood	blood
17	chr3:111257200-111258400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr3:111257200-111258400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:111257200-111258400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
20	chr3:111257200-111258400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr3:111257200-111258400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr3:111257200-111258400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr3:111257200-111258400	Enhancers	Osteobl	bone
24	chr3:111257200-111258600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr3:111257200-111258600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
26	chr3:111257200-111258600	Enhancers	Hela-S3	cervix
27	chr3:111257200-111258600	Enhancers	HMEC	breast
28	chr3:111257200-111258600	Enhancers	NH-A	brain
29	chr3:111257200-111258800	Enhancers	Primary hematopoietic stem cells	blood
30	chr3:111257200-111258800	Enhancers	HSMM	muscle
31	chr3:111257200-111259000	Enhancers	NHLF	lung
32	chr3:111257200-111261000	Enhancers	Primary B cells from peripheral blood	blood
33	chr3:111257400-111257600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr3:111257400-111257600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
35	chr3:111257400-111257800	Enhancers	GM12878-XiMat	blood
36	chr3:111257400-111258000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr3:111257400-111258000	Enhancers	Colonic Mucosa	Colon
38	chr3:111257400-111258200	Enhancers	Primary B cells from cord blood	blood
39	chr3:111257400-111258200	Enhancers	Primary T cells fromperipheralblood	blood
40	chr3:111257400-111258200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
41	chr3:111257400-111258200	Enhancers	Fetal Thymus	thymus
42	chr3:111257400-111258400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
43	chr3:111257400-111258400	Enhancers	Duodenum Mucosa	Duodenum
44	chr3:111257400-111258400	Enhancers	A549	lung
45	chr3:111257400-111258600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr3:111257400-111258600	Enhancers	HSMMtube	muscle
47	chr3:111257400-111258600	Enhancers	NHEK	skin
48	chr3:111257400-111258800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr3:111257400-111258800	Enhancers	Fetal Lung	lung
50	chr3:111257400-111258800	Enhancers	Ovary	ovary

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