Variant report

Variant	rs13066204
Chromosome Location	chr3:17089474-17089475
allele	A/T
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	PML	chr3:17088612-17089777	GM12878	blood:	n/a	n/a
2	BATF	chr3:17089423-17089851	GM12878	blood:	n/a	n/a
3	NFIC	chr3:17089229-17089972	GM12878	blood:	n/a	n/a
4	EBF1	chr3:17089344-17089679	GM12878	blood:	n/a	n/a
5	ATF2	chr3:17089356-17089863	GM12878	blood:	n/a	n/a
6	MEF2C	chr3:17089395-17089858	GM12878	blood:	n/a	n/a
7	ZNF384	chr3:17089294-17089796	GM12878	blood:	n/a	n/a
8	JUND	chr3:17088533-17089668	GM12878	blood:	n/a	chr3:17088897-17088909
9	TBL1XR1	chr3:17089431-17089589	GM12878	blood:	n/a	n/a
10	RUNX3	chr3:17089306-17089876	GM12878	blood:	n/a	n/a
11	FOXM1	chr3:17089323-17089889	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
PLCL2-AS1	TF binding region

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11549706	0.93[CEU][hapmap]
rs13059760	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13062572	1.00[CEU][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13085309	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13089569	0.93[CEU][hapmap]
rs13096536	0.86[EUR][1000 genomes]
rs13097797	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17272810	0.93[CEU][hapmap];0.86[EUR][1000 genomes]
rs17272817	0.86[EUR][1000 genomes]
rs17272831	0.93[CEU][hapmap];0.86[EUR][1000 genomes]
rs28498854	0.84[EUR][1000 genomes]
rs34704046	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34824028	0.86[EUR][1000 genomes]
rs35100600	0.85[EUR][1000 genomes]
rs36118680	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3935970	0.93[CEU][hapmap];0.86[EUR][1000 genomes]
rs4290789	0.84[EUR][1000 genomes]
rs56060350	0.86[EUR][1000 genomes]
rs62247182	0.86[EUR][1000 genomes]
rs62247257	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6789069	0.86[CEU][hapmap];0.86[EUR][1000 genomes]
rs71627166	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7616589	0.93[CEU][hapmap];0.85[EUR][1000 genomes]
rs7652293	0.93[CEU][hapmap];0.86[EUR][1000 genomes]
rs7652874	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9834723	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs9845137	0.93[CEU][hapmap];0.84[EUR][1000 genomes]
rs9876768	0.93[CEU][hapmap];0.82[EUR][1000 genomes]

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17070000-17093600	Weak transcription	Fetal Lung	lung
2	chr3:17073000-17093000	Weak transcription	Spleen	Spleen
3	chr3:17077400-17094600	Weak transcription	Psoas Muscle	Psoas
4	chr3:17079800-17090000	Strong transcription	Primary B cells from cord blood	blood
5	chr3:17080800-17090200	Weak transcription	Fetal Muscle Leg	muscle
6	chr3:17081200-17111400	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr3:17081600-17090000	Strong transcription	Primary T cells from cord blood	blood
8	chr3:17081600-17090200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr3:17081800-17090000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr3:17082200-17089800	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr3:17082400-17090200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr3:17082400-17092800	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr3:17082600-17090000	Weak transcription	Fetal Brain Female	brain
14	chr3:17082600-17097000	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr3:17083000-17096600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:17083000-17097200	Weak transcription	NH-A	brain
17	chr3:17083000-17109600	Weak transcription	Fetal Intestine Large	intestine
18	chr3:17083200-17090000	Weak transcription	Duodenum Mucosa	Duodenum
19	chr3:17083200-17111600	Weak transcription	Stomach Mucosa	stomach
20	chr3:17083800-17090400	Weak transcription	Stomach Smooth Muscle	stomach
21	chr3:17084000-17090600	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr3:17084000-17091200	Strong transcription	Primary T helper cells PMA-I stimulated	--
23	chr3:17084000-17094800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr3:17084200-17090200	Strong transcription	Primary T helper cells fromperipheralblood	blood
25	chr3:17084200-17090400	Strong transcription	Primary neutrophils fromperipheralblood	blood
26	chr3:17084200-17090400	Strong transcription	Primary T cells fromperipheralblood	blood
27	chr3:17085000-17095800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr3:17085200-17090200	Strong transcription	Primary B cells from peripheral blood	blood
29	chr3:17085200-17090200	Strong transcription	Placenta	Placenta
30	chr3:17085600-17089800	Weak transcription	A549	lung
31	chr3:17085800-17094000	Weak transcription	Aorta	Aorta
32	chr3:17085800-17112200	Weak transcription	Gastric	stomach
33	chr3:17086000-17094600	Weak transcription	Brain Germinal Matrix	brain
34	chr3:17086000-17096000	Weak transcription	Right Ventricle	heart
35	chr3:17086000-17096400	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr3:17086600-17089800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr3:17086600-17090600	Strong transcription	Adipose Nuclei	Adipose
38	chr3:17086800-17089800	Strong transcription	Ovary	ovary
39	chr3:17086800-17090400	Enhancers	HUES48 Cell Line	embryonic stem cell
40	chr3:17087000-17089600	Strong transcription	Fetal Intestine Small	intestine
41	chr3:17087000-17090200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
42	chr3:17087000-17090800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr3:17087200-17090400	Enhancers	iPS-18 Cell Line	embryonic stem cell
44	chr3:17087200-17090400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
45	chr3:17087200-17090400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr3:17087200-17090400	Strong transcription	Primary T killer memory cells from peripheral blood	blood
47	chr3:17087400-17090000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
48	chr3:17087400-17090600	Strong transcription	Primary monocytes fromperipheralblood	blood
49	chr3:17087400-17095200	Weak transcription	Rectal Smooth Muscle	rectum
50	chr3:17087600-17089600	Enhancers	H1 Cell Line	embryonic stem cell

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