Variant report

Variant	rs16859274
Chromosome Location	chr3:111849662-111849663
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:50)
CpG islands
(count:0)
Chromatin interactive
region (count:1)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:50 , 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	chr3:111848615-111850662	GM12891	blood:	n/a	n/a
3	POLR2A	chr3:111849077-111849826	GM12878	blood:	n/a	n/a
4	POLR2A	chr3:111846191-111854054	GM12892	blood:	n/a	n/a
5	POLR2A	chr3:111846327-111850616	GM12891	blood:	n/a	n/a
6	SIN3A	chr3:111849071-111849708	GM12878	blood:	n/a	n/a
7	STAT5A	chr3:111846153-111850352	GM12878	blood:	n/a	n/a
8	PML	chr3:111849328-111849798	GM12878	blood:	n/a	n/a
9	BCLAF1	chr3:111848606-111850771	GM12878	blood:	n/a	n/a
10	EBF1	chr3:111848969-111849704	GM12878	blood:	n/a	n/a
11	TBP	chr3:111848676-111853001	GM12878	blood:	n/a	n/a
12	BCLAF1	chr3:111847282-111850673	GM12878	blood:	n/a	n/a
13	ATF2	chr3:111848393-111850330	GM12878	blood:	n/a	n/a
14	POLR2A	chr3:111846304-111850588	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	POU2F2	chr3:111848784-111849929	GM12878	blood:	n/a	n/a
20	POLR2A	chr3:111846326-111850640	GM12892	blood:	n/a	n/a
21	NFIC	chr3:111845900-111853068	GM12878	blood:	n/a	n/a
22	POLR2A	chr3:111846294-111850516	GM12878	blood:	n/a	n/a
23	MXI1	chr3:111846273-111849806	GM12878	blood:	n/a	n/a
24	POLR2A	chr3:111846063-111856284	GM12878	blood:	n/a	n/a
25	STAT5A	chr3:111849062-111850296	GM12878	blood:	n/a	n/a
26	MAX	chr3:111849135-111849842	GM12878	blood:	n/a	n/a
27	TBL1XR1	chr3:111846204-111850317	GM12878	blood:	n/a	n/a
28	FOXM1	chr3:111848733-111849992	GM12878	blood:	n/a	n/a
29	POLR2A	chr3:111849101-111849816	GM12878	blood:	n/a	n/a
30	POLR2A	chr3:111846207-111853952	GM12892	blood:	n/a	n/a
31	POLR2A	chr3:111848814-111850620	GM12891	blood:	n/a	n/a
32	POLR2A	chr3:111846124-111855250	GM12878	blood:	n/a	n/a
33	CUX1	chr3:111848565-111852995	GM12878	blood:	n/a	n/a
34	POLR2A	chr3:111843489-111856486	GM12878	blood:	n/a	n/a
35	RUNX3	chr3:111846201-111850336	GM12878	blood:	n/a	n/a
36	WRNIP1	chr3:111847344-111850511	GM12878	blood:	n/a	n/a
37	POLR2A	chr3:111847163-111853431	GM15510	blood:	n/a	n/a
38	RUNX3	chr3:111847639-111849795	GM12878	blood:	n/a	n/a
39	ATF2	chr3:111846121-111850018	GM12878	blood:	n/a	n/a
40	MTA3	chr3:111845901-111857252	GM12878	blood:	n/a	n/a
41	MTA3	chr3:111846320-111854316	GM12878	blood:	n/a	n/a
42	POLR2A	chr3:111846225-111854392	GM12891	blood:	n/a	n/a
43	USF2	chr3:111849535-111849749	GM12878	blood:	n/a	n/a
44	PML	chr3:111846035-111850490	GM12878	blood:	n/a	n/a
45	POLR2A	chr3:111846115-111850762	GM12878	blood:	n/a	n/a
46	POLR2A	chr3:111846166-111854300	GM12892	blood:	n/a	n/a
47	POLR2A	chr3:111846220-111850660	GM12892	blood:	n/a	n/a
48	CTCF	chr3:111849580-111849730	A549	lung:	n/a	n/a
49	CHD1	chr3:111846029-111853199	GM12878	blood:	n/a	n/a
50	POLR2A	chr3:111846124-111854277	GM18505	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:111847880..111850020-chr3:111853363..111855943,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000261488	TF binding region

rs_ID	r²[population]
rs11919685	0.89[YRI][hapmap]
rs16859130	0.85[CHD][hapmap]
rs16859132	0.85[CHD][hapmap]
rs16859217	1.00[GIH][hapmap]
rs16859233	1.00[GIH][hapmap]
rs4682362	1.00[MEX][hapmap]
rs60341409	1.00[AFR][1000 genomes]
rs9880242	1.00[MEX][hapmap]

SNP	Gene	Cis/trans	Tissue	Source
rs16859274	GPR125	trans	lymphoblastoid	seeQTL

Chromatin state (count:71 , 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	chr3:111830600-111853200	Weak transcription	Lung	lung
4	chr3:111834200-111853800	Weak transcription	Fetal Intestine Small	intestine
5	chr3:111839000-111853000	Weak transcription	Left Ventricle	heart
6	chr3:111840800-111855800	Weak transcription	NH-A	brain
7	chr3:111843600-111849800	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
8	chr3:111844400-111850000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
9	chr3:111844800-111855800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr3:111845000-111851000	Enhancers	Primary B cells from peripheral blood	blood
11	chr3:111845600-111850800	Weak transcription	HSMMtube	muscle
12	chr3:111845600-111852800	Weak transcription	Fetal Muscle Trunk	muscle
13	chr3:111845600-111855800	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr3:111845800-111851800	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr3:111845800-111853200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr3:111846000-111850200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
17	chr3:111846400-111850800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
18	chr3:111846800-111850800	Enhancers	Primary T cells fromperipheralblood	blood
19	chr3:111846800-111851600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
20	chr3:111846800-111853000	Weak transcription	Adipose Nuclei	Adipose
21	chr3:111847000-111850000	Enhancers	Primary T helper naive cells from peripheral blood	blood
22	chr3:111847000-111851000	Enhancers	Primary T killer memory cells from peripheral blood	blood
23	chr3:111847000-111851800	Weak transcription	Fetal Muscle Leg	muscle
24	chr3:111847000-111853200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr3:111847400-111851000	Enhancers	Primary B cells from cord blood	blood
26	chr3:111847600-111851200	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr3:111847800-111849800	Enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr3:111847800-111850200	Enhancers	Primary neutrophils fromperipheralblood	blood
29	chr3:111848000-111849800	Enhancers	Fetal Heart	heart
30	chr3:111848000-111851000	Weak transcription	Duodenum Mucosa	Duodenum
31	chr3:111848000-111853200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr3:111848200-111849800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
33	chr3:111848200-111857000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
34	chr3:111848400-111851000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
35	chr3:111848400-111853800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr3:111848400-111854600	Weak transcription	HUES48 Cell Line	embryonic stem cell
37	chr3:111848400-111854800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
38	chr3:111848400-111855800	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr3:111848400-111856000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr3:111848400-111856800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr3:111848600-111851000	Weak transcription	Primary monocytes fromperipheralblood	blood
42	chr3:111848600-111851200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr3:111848600-111851600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr3:111848800-111850400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr3:111848800-111851000	Weak transcription	NHEK	skin
46	chr3:111848800-111851400	Weak transcription	Monocytes-CD14+_RO01746	blood
47	chr3:111848800-111851600	Weak transcription	HMEC	breast
48	chr3:111848800-111851800	Weak transcription	Placenta	Placenta
49	chr3:111848800-111853600	Weak transcription	HUES64 Cell Line	embryonic stem cell
50	chr3:111848800-111854200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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