Variant report

Variant	rs56129827
Chromosome Location	chr3:111847684-111847685
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:60)
CpG islands
(count:0)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:60 , 50 per page) page: 1 2

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	PAX5	chr3:111847682-111848070	GM12878	blood:	n/a	n/a
6	EBF1	chr3:111847678-111848099	GM12878	blood:	n/a	n/a
7	EBF1	chr3:111846296-111848395	GM12878	blood:	n/a	n/a
8	BCLAF1	chr3:111847282-111850673	GM12878	blood:	n/a	n/a
9	ATF2	chr3:111847417-111848336	GM12878	blood:	n/a	n/a
10	CEBPB	chr3:111846236-111848344	GM12878	blood:	n/a	n/a
11	STAT1	chr3:111847662-111848235	GM12878	blood:	n/a	n/a
12	POLR2A	chr3:111846304-111850588	GM12878	blood:	n/a	n/a
13	EP300	chr3:111847561-111848338	GM12878	blood:	n/a	n/a
14	CUX1	chr3:111847524-111848144	GM12878	blood:	n/a	n/a
15	POLR2A	chr3:111846299-111854337	Raji	blood:	n/a	n/a
16	NFATC1	chr3:111846108-111854042	GM12878	blood:	n/a	n/a
17	CHD2	chr3:111846255-111849775	GM12878	blood:	n/a	n/a
18	POLR2A	chr3:111847278-111850662	GM12891	blood:	n/a	n/a
19	MEF2A	chr3:111847475-111848105	GM12878	blood:	n/a	n/a
20	POLR2A	chr3:111846326-111850640	GM12892	blood:	n/a	n/a
21	FOXM1	chr3:111847466-111848662	GM12878	blood:	n/a	n/a
22	NFIC	chr3:111845900-111853068	GM12878	blood:	n/a	n/a
23	POLR2A	chr3:111846294-111850516	GM12878	blood:	n/a	n/a
24	MXI1	chr3:111846273-111849806	GM12878	blood:	n/a	n/a
25	PML	chr3:111847292-111848067	GM12878	blood:	n/a	n/a
26	STAT3	chr3:111846351-111848355	GM12878	blood:	n/a	n/a
27	POLR2A	chr3:111846063-111856284	GM12878	blood:	n/a	n/a
28	POU2F2	chr3:111847614-111848489	GM12878	blood:	n/a	n/a
29	FOXM1	chr3:111847537-111849491	GM12878	blood:	n/a	n/a
30	TBP	chr3:111847331-111848429	GM12878	blood:	n/a	n/a
31	CTCF	chr3:111847681-111847984	GM12878	blood:	n/a	n/a
32	TBL1XR1	chr3:111846204-111850317	GM12878	blood:	n/a	n/a
33	BCL3	chr3:111847582-111848097	GM12878	blood:	n/a	n/a
34	POLR2A	chr3:111846207-111853952	GM12892	blood:	n/a	n/a
35	BHLHE40	chr3:111846311-111848519	GM12878	blood:	n/a	n/a
36	POLR2A	chr3:111846124-111855250	GM12878	blood:	n/a	n/a
37	CREB1	chr3:111847557-111848476	GM12878	blood:	n/a	n/a
38	POU2F2	chr3:111847664-111848052	GM12878	blood:	n/a	n/a
39	POLR2A	chr3:111843489-111856486	GM12878	blood:	n/a	n/a
40	RUNX3	chr3:111846201-111850336	GM12878	blood:	n/a	n/a
41	WRNIP1	chr3:111847344-111850511	GM12878	blood:	n/a	n/a
42	POLR2A	chr3:111847163-111853431	GM15510	blood:	n/a	n/a
43	RUNX3	chr3:111847639-111849795	GM12878	blood:	n/a	n/a
44	ATF2	chr3:111846121-111850018	GM12878	blood:	n/a	n/a
45	MTA3	chr3:111845901-111857252	GM12878	blood:	n/a	n/a
46	MTA3	chr3:111846320-111854316	GM12878	blood:	n/a	n/a
47	POLR2A	chr3:111846225-111854392	GM12891	blood:	n/a	n/a
48	SP1	chr3:111847653-111848116	GM12878	blood:	n/a	n/a
49	TAF1	chr3:111847662-111848083	GM12878	blood:	n/a	n/a
50	PML	chr3:111846035-111850490	GM12878	blood:	n/a	n/a

No data

Variant related genes	Relation type
ENSG00000261488	TF binding region

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs11926389	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12489470	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12489616	1.00[ASN][1000 genomes]
rs12636943	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13064242	1.00[ASN][1000 genomes]
rs1388858	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1388859	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1492479	0.85[AMR][1000 genomes]
rs1492489	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17444215	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17505536	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1873712	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1907764	0.80[EUR][1000 genomes]
rs4234409	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4234410	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4234411	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4280608	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4321508	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4347976	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4422273	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4434123	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4498008	1.00[ASN][1000 genomes]
rs4507228	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4538347	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4564946	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4638935	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4682087	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4682092	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4682367	1.00[ASN][1000 genomes]
rs4682373	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55714509	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55869871	1.00[ASN][1000 genomes]
rs55899888	1.00[ASN][1000 genomes]
rs56042414	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56062310	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56109455	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56353930	1.00[ASN][1000 genomes]
rs56364691	0.80[AMR][1000 genomes]
rs62276971	1.00[ASN][1000 genomes]
rs62276973	1.00[ASN][1000 genomes]
rs62276974	1.00[ASN][1000 genomes]
rs62277010	1.00[ASN][1000 genomes]
rs62277011	1.00[ASN][1000 genomes]
rs62277480	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62280198	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62280199	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62280204	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62280205	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6438037	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6438038	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6770357	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6772480	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6781207	1.00[ASN][1000 genomes]
rs6781215	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6781683	1.00[ASN][1000 genomes]
rs6781844	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6787323	1.00[ASN][1000 genomes]
rs6789875	0.80[EUR][1000 genomes]
rs6797177	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6801795	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6804836	0.80[EUR][1000 genomes]
rs6805112	1.00[ASN][1000 genomes]
rs6805397	1.00[ASN][1000 genomes]
rs6805505	1.00[ASN][1000 genomes]
rs6805887	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73218074	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73218079	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73223686	1.00[ASN][1000 genomes]
rs7431999	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7432037	1.00[ASN][1000 genomes]
rs7615460	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7621219	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7625249	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7631223	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7637682	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9288942	1.00[ASN][1000 genomes]
rs9810170	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9813882	1.00[ASN][1000 genomes]
rs9819540	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9838986	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9871492	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9871532	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9877734	0.80[EUR][1000 genomes];1.00[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	chr3:111845800-111847800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr3:111845800-111847800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr3:111845800-111847800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr3:111845800-111847800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr3:111845800-111847800	Enhancers	Hela-S3	cervix
38	chr3:111845800-111851800	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr3:111845800-111853200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr3:111846000-111847800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr3:111846000-111850200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
42	chr3:111846200-111849400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
43	chr3:111846400-111850800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
44	chr3:111846600-111848600	Strong transcription	Rectal Mucosa Donor 31	rectum
45	chr3:111846600-111849200	Enhancers	Primary T helper cells fromperipheralblood	blood
46	chr3:111846600-111849200	Enhancers	Fetal Thymus	thymus
47	chr3:111846800-111847800	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr3:111846800-111847800	Weak transcription	Primary neutrophils fromperipheralblood	blood
49	chr3:111846800-111848000	Enhancers	Duodenum Mucosa	Duodenum
50	chr3:111846800-111848600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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