Variant report

Variant	rs4416469
Chromosome Location	chr4:26585138-26585139
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:46)
CpG islands
(count:0)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:46 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ATF2	chr4:26585109-26585860	GM12878	blood:	n/a	n/a
2	GABPA	chr4:26585076-26585922	A549	lung:	n/a	n/a
3	POLR2A	chr4:26585050-26585950	GM12891	blood:	n/a	n/a
4	SIN3AK20	chr4:26585097-26586266	HCT-116	colon:	n/a	n/a
5	POLR2A	chr4:26585086-26586282	MCF10A-Er-Src	breast:	n/a	n/a
6	GABPA	chr4:26585120-26586000	SK-N-SH	brain:	n/a	n/a
7	GABPA	chr4:26584948-26586049	HL-60	blood:	n/a	n/a
8	POLR2A	chr4:26585103-26586317	U87	brain:	n/a	n/a
9	GABPA	chr4:26585069-26586129	SK-N-SH	brain:	n/a	n/a
10	CBX3	chr4:26584974-26586052	HCT-116	colon:	n/a	n/a
11	HCFC1	chr4:26584990-26586058	Hela-S3	cervix:	n/a	n/a
12	MXI1	chr4:26584947-26586033	GM12878	blood:	n/a	n/a
13	POLR2A	chr4:26585053-26585961	H1-hESC	embryonic stem cell:	n/a	n/a
14	POLR2A	chr4:26585101-26586014	GM12892	blood:	n/a	n/a
15	POLR2A	chr4:26585044-26585983	HL-60	blood:	n/a	n/a
16	POLR2A	chr4:26585069-26586144	MCF10A-Er-Src	breast:	n/a	n/a
17	NFATC1	chr4:26585093-26585756	GM12878	blood:	n/a	n/a
18	POLR2A	chr4:26585118-26585906	GM12891	blood:	n/a	n/a
19	RUNX3	chr4:26585134-26585954	GM12878	blood:	n/a	n/a
20	POLR2A	chr4:26585113-26585931	GM12891	blood:	n/a	n/a
21	MAX	chr4:26585032-26586451	HCT-116	colon:	n/a	n/a
22	POLR2A	chr4:26585080-26585980	SK-N-SH	brain:	n/a	n/a
23	POLR2A	chr4:26585034-26586036	HCT-116	colon:	n/a	n/a
24	TCF12	chr4:26585105-26586027	A549	lung:	n/a	n/a
25	GABPA	chr4:26585136-26585930	MCF-7	breast:	n/a	n/a
26	POLR2A	chr4:26585073-26586202	H1-neurons	neurons:	n/a	n/a
27	REST	chr4:26585123-26585951	HL-60	blood:	n/a	n/a
28	MXI1	chr4:26584640-26586782	SK-N-SH	brain:	n/a	n/a
29	POLR2A	chr4:26585104-26585964	Raji	blood:	n/a	n/a
30	TBP	chr4:26585127-26585927	Hela-S3	cervix:	n/a	n/a
31	NFATC1	chr4:26585041-26585886	GM12878	blood:	n/a	n/a
32	MTA3	chr4:26585024-26586095	GM12878	blood:	n/a	n/a
33	YY1	chr4:26585099-26585852	SK-N-SH_RA	brain:	n/a	n/a
34	TBP	chr4:26585125-26585890	H1-hESC	embryonic stem cell:	n/a	n/a
35	CREB1	chr4:26585130-26585971	GM12878	blood:	n/a	n/a
36	GABPA	chr4:26585090-26585945	A549	lung:	n/a	n/a
37	CBX3	chr4:26585058-26586064	HCT-116	colon:	n/a	n/a
38	FOS	chr4:26585067-26585764	MCF10A-Er-Src	breast:	n/a	n/a
39	BCLAF1	chr4:26585081-26585936	GM12878	blood:	n/a	chr4:26585502-26585510
40	MAZ	chr4:26584930-26586633	IMR90	lung:	n/a	n/a
41	RAD21	chr4:26585120-26585935	ECC-1	luminal epithelium:	n/a	n/a
42	POLR2A	chr4:26585045-26586009	GM12892	blood:	n/a	n/a
43	MAX	chr4:26585093-26586039	ECC-1	luminal epithelium:	n/a	n/a
44	RCOR1	chr4:26585104-26586054	GM12878	blood:	n/a	n/a
45	REST	chr4:26584780-26586738	H1-neurons	neurons:	n/a	n/a
46	POLR2A	chr4:26585095-26586076	H1-neurons	neurons:	n/a	n/a

No data

Variant related genes	Relation type
TBC1D19	TF binding region

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10014273	1.00[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs10031954	0.81[ASN][1000 genomes]
rs10470786	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10805265	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10939130	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[EUR][1000 genomes]
rs11737510	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13117759	0.81[ASN][1000 genomes]
rs13133205	0.80[ASN][1000 genomes]
rs13353547	0.81[ASN][1000 genomes]
rs1387541	1.00[ASN][1000 genomes]
rs1641558	0.87[ASN][1000 genomes]
rs1641560	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1641561	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1686374	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1686383	1.00[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16878551	1.00[CHB][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs1994551	0.87[ASN][1000 genomes]
rs2309411	0.87[ASN][1000 genomes]
rs2309414	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs260941	1.00[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs260942	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs260944	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs260947	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs260951	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs260954	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs260955	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs28420370	1.00[ASN][1000 genomes]
rs28474372	1.00[ASN][1000 genomes]
rs4235020	0.81[ASN][1000 genomes]
rs6831895	0.81[ASN][1000 genomes]
rs6833757	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs6857426	1.00[ASN][1000 genomes]
rs73114606	0.87[ASN][1000 genomes]
rs73114608	0.98[ASN][1000 genomes]
rs7656543	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[ASN][1000 genomes]
rs7670323	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7672066	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7690923	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9997756	0.81[ASN][1000 genomes]
rs9997999	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26575200-26585200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:26579200-26585200	Weak transcription	HSMMtube	muscle
3	chr4:26579800-26585200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr4:26584600-26585400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr4:26584800-26585200	Active TSS	Primary hematopoietic stem cells short term culture	blood
6	chr4:26584800-26585200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
7	chr4:26584800-26585200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
8	chr4:26584800-26585200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
9	chr4:26584800-26585200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
10	chr4:26584800-26585200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
11	chr4:26584800-26585200	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
12	chr4:26584800-26585200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr4:26584800-26585200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr4:26584800-26585200	Enhancers	Placenta Amnion	Placenta Amnion
15	chr4:26584800-26585400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr4:26584800-26585400	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
17	chr4:26584800-26585400	Flanking Active TSS	HMEC	breast
18	chr4:26584800-26585400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
19	chr4:26584800-26585600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr4:26584800-26586200	Active TSS	Brain Anterior Caudate	brain
21	chr4:26584800-26586200	Active TSS	Brain Cingulate Gyrus	brain
22	chr4:26584800-26586200	Active TSS	Brain Inferior Temporal Lobe	brain
23	chr4:26584800-26586200	Active TSS	Duodenum Smooth Muscle	Duodenum
24	chr4:26584800-26586200	Active TSS	Skeletal Muscle Male	skeletal muscle
25	chr4:26584800-26586200	Active TSS	Stomach Smooth Muscle	stomach
26	chr4:26584800-26586400	Active TSS	Breast Myoepithelial Primary Cells	Breast
27	chr4:26584800-26586400	Active TSS	Brain Hippocampus Middle	brain
28	chr4:26584800-26586400	Active TSS	Fetal Kidney	kidney
29	chr4:26584800-26586600	Active TSS	Primary B cells from cord blood	blood
30	chr4:26584800-26586800	Active TSS	Brain Germinal Matrix	brain
31	chr4:26584800-26586800	Active TSS	Fetal Brain Female	brain
32	chr4:26584800-26587000	Active TSS	Pancreatic Islets	Pancreatic Islet
33	chr4:26584800-26587200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr4:26585000-26585200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr4:26585000-26585200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr4:26585000-26585200	Enhancers	Primary neutrophils fromperipheralblood	blood
37	chr4:26585000-26585200	Flanking Active TSS	Primary B cells from peripheral blood	blood
38	chr4:26585000-26585200	Flanking Active TSS	Primary T cells from cord blood	blood
39	chr4:26585000-26585200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
40	chr4:26585000-26585200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
41	chr4:26585000-26585200	Flanking Active TSS	Brain Angular Gyrus	brain
42	chr4:26585000-26585200	Flanking Active TSS	Colon Smooth Muscle	Colon
43	chr4:26585000-26585200	Flanking Active TSS	Fetal Heart	heart
44	chr4:26585000-26585200	Flanking Active TSS	Fetal Intestine Large	intestine
45	chr4:26585000-26585200	Flanking Active TSS	Fetal Intestine Small	intestine
46	chr4:26585000-26585200	Flanking Active TSS	Fetal Lung	lung
47	chr4:26585000-26585200	Flanking Active TSS	Stomach Mucosa	stomach
48	chr4:26585000-26585200	Flanking Active TSS	A549	lung
49	chr4:26585000-26585200	Flanking Active TSS	HepG2	liver
50	chr4:26585000-26585200	Enhancers	HSMM	muscle

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