Variant report

Variant	rs1492486
Chromosome Location	chr3:111847529-111847530
allele	C/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	NFATC1	chr3:111846287-111853296	GM12878	blood:	n/a	n/a
2	POLR2A	chr3:111846191-111854054	GM12892	blood:	n/a	n/a
3	POLR2A	chr3:111846327-111850616	GM12891	blood:	n/a	n/a
4	STAT5A	chr3:111846153-111850352	GM12878	blood:	n/a	n/a
5	EBF1	chr3:111846296-111848395	GM12878	blood:	n/a	n/a
6	BCLAF1	chr3:111847282-111850673	GM12878	blood:	n/a	n/a
7	ATF2	chr3:111847417-111848336	GM12878	blood:	n/a	n/a
8	CEBPB	chr3:111846236-111848344	GM12878	blood:	n/a	n/a
9	POLR2A	chr3:111846304-111850588	GM12878	blood:	n/a	n/a
10	CUX1	chr3:111847524-111848144	GM12878	blood:	n/a	n/a
11	POLR2A	chr3:111846299-111854337	Raji	blood:	n/a	n/a
12	NFATC1	chr3:111846108-111854042	GM12878	blood:	n/a	n/a
13	CHD2	chr3:111846255-111849775	GM12878	blood:	n/a	n/a
14	POLR2A	chr3:111847278-111850662	GM12891	blood:	n/a	n/a
15	MEF2A	chr3:111847475-111848105	GM12878	blood:	n/a	n/a
16	POLR2A	chr3:111846326-111850640	GM12892	blood:	n/a	n/a
17	FOXM1	chr3:111847466-111848662	GM12878	blood:	n/a	n/a
18	NFIC	chr3:111845900-111853068	GM12878	blood:	n/a	n/a
19	POLR2A	chr3:111846294-111850516	GM12878	blood:	n/a	n/a
20	MXI1	chr3:111846273-111849806	GM12878	blood:	n/a	n/a
21	PML	chr3:111847292-111848067	GM12878	blood:	n/a	n/a
22	STAT3	chr3:111846351-111848355	GM12878	blood:	n/a	n/a
23	POLR2A	chr3:111846063-111856284	GM12878	blood:	n/a	n/a
24	TBP	chr3:111847331-111848429	GM12878	blood:	n/a	n/a
25	TBL1XR1	chr3:111846204-111850317	GM12878	blood:	n/a	n/a
26	POLR2A	chr3:111846207-111853952	GM12892	blood:	n/a	n/a
27	BHLHE40	chr3:111846311-111848519	GM12878	blood:	n/a	n/a
28	POLR2A	chr3:111846124-111855250	GM12878	blood:	n/a	n/a
29	POLR2A	chr3:111843489-111856486	GM12878	blood:	n/a	n/a
30	RUNX3	chr3:111846201-111850336	GM12878	blood:	n/a	n/a
31	WRNIP1	chr3:111847344-111850511	GM12878	blood:	n/a	n/a
32	POLR2A	chr3:111847163-111853431	GM15510	blood:	n/a	n/a
33	ATF2	chr3:111846121-111850018	GM12878	blood:	n/a	n/a
34	MTA3	chr3:111845901-111857252	GM12878	blood:	n/a	n/a
35	MTA3	chr3:111846320-111854316	GM12878	blood:	n/a	n/a
36	POLR2A	chr3:111846225-111854392	GM12891	blood:	n/a	n/a
37	PML	chr3:111846035-111850490	GM12878	blood:	n/a	n/a
38	POLR2A	chr3:111846247-111848808	GM12891	blood:	n/a	n/a
39	POLR2A	chr3:111846115-111850762	GM12878	blood:	n/a	n/a
40	POLR2A	chr3:111846166-111854300	GM12892	blood:	n/a	n/a
41	POLR2A	chr3:111846285-111848603	GM12891	blood:	n/a	n/a
42	NFIC	chr3:111845859-111849555	GM12878	blood:	n/a	n/a
43	POLR2A	chr3:111846220-111850660	GM12892	blood:	n/a	n/a
44	BCLAF1	chr3:111846103-111848530	GM12878	blood:	n/a	n/a
45	CHD1	chr3:111846029-111853199	GM12878	blood:	n/a	n/a
46	POLR2A	chr3:111846124-111854277	GM18505	blood:	n/a	n/a

No data

Variant related genes	Relation type
ENSG00000261488	TF binding region

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10511306	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10511307	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10511308	0.83[CEU][hapmap]
rs11919901	0.80[CEU][hapmap]
rs11924882	0.80[CEU][hapmap]
rs11928130	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12053863	0.87[CEU][hapmap]
rs13059342	0.82[CEU][hapmap];0.81[CHB][hapmap]
rs13061801	0.83[CEU][hapmap]
rs13069933	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13078713	0.85[CHB][hapmap]
rs13087387	0.80[CEU][hapmap]
rs13089316	0.83[CEU][hapmap]
rs13090344	0.80[CEU][hapmap]
rs1388855	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1492480	0.83[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs1492481	0.89[CEU][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1492483	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1492484	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1492485	0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1586874	0.80[CEU][hapmap]
rs1602672	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1948404	0.92[CEU][hapmap];0.96[EUR][1000 genomes]
rs1994772	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2029638	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35411358	0.87[EUR][1000 genomes]
rs4279069	0.80[CEU][hapmap]
rs4682389	0.83[CEU][hapmap]
rs6781137	0.83[CEU][hapmap]
rs7651558	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs879652	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs950528	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111810400-111852000	Weak transcription	Esophagus	oesophagus
2	chr3:111812200-111853000	Weak transcription	Right Ventricle	heart
3	chr3:111819600-111847800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:111830600-111853200	Weak transcription	Lung	lung
5	chr3:111834200-111853800	Weak transcription	Fetal Intestine Small	intestine
6	chr3:111834400-111848000	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr3:111835800-111849600	Weak transcription	Small Intestine	intestine
8	chr3:111836200-111849200	Weak transcription	Aorta	Aorta
9	chr3:111839000-111853000	Weak transcription	Left Ventricle	heart
10	chr3:111840800-111849200	Weak transcription	Gastric	stomach
11	chr3:111840800-111855800	Weak transcription	NH-A	brain
12	chr3:111842800-111849200	Weak transcription	Pancreas	Pancrea
13	chr3:111843600-111848400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr3:111843600-111848400	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr3:111843600-111849200	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr3:111843600-111849800	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
17	chr3:111843800-111848400	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr3:111843800-111849000	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr3:111843800-111849200	Enhancers	Primary hematopoietic stem cells	blood
20	chr3:111844000-111847800	Enhancers	Fetal Kidney	kidney
21	chr3:111844000-111848600	Enhancers	iPS-18 Cell Line	embryonic stem cell
22	chr3:111844000-111848800	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr3:111844400-111850000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
24	chr3:111844800-111848800	Enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr3:111844800-111855800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr3:111845000-111851000	Enhancers	Primary B cells from peripheral blood	blood
27	chr3:111845400-111848600	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr3:111845600-111847800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr3:111845600-111847800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr3:111845600-111850800	Weak transcription	HSMMtube	muscle
31	chr3:111845600-111852800	Weak transcription	Fetal Muscle Trunk	muscle
32	chr3:111845600-111855800	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr3:111845800-111847600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr3:111845800-111847800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr3:111845800-111847800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr3:111845800-111847800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr3:111845800-111847800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr3:111845800-111847800	Enhancers	Hela-S3	cervix
39	chr3:111845800-111851800	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr3:111845800-111853200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr3:111846000-111847800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr3:111846000-111850200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
43	chr3:111846200-111849400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
44	chr3:111846400-111850800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
45	chr3:111846600-111848600	Strong transcription	Rectal Mucosa Donor 31	rectum
46	chr3:111846600-111849200	Enhancers	Primary T helper cells fromperipheralblood	blood
47	chr3:111846600-111849200	Enhancers	Fetal Thymus	thymus
48	chr3:111846800-111847600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
49	chr3:111846800-111847800	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr3:111846800-111847800	Weak transcription	Primary neutrophils fromperipheralblood	blood

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