Variant report

Variant	rs12352604
Chromosome Location	chr9:15258814-15258815
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10961941	1.00[JPT][hapmap]
rs10961946	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10961948	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs12004795	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12005971	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs12336514	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12338912	1.00[JPT][hapmap]
rs12343461	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12345299	0.81[CEU][hapmap];0.82[CHB][hapmap]
rs12349572	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2061729	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3853430	0.86[JPT][hapmap]
rs3853431	0.86[JPT][hapmap]
rs3853432	0.86[JPT][hapmap]
rs55998824	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56257383	0.83[ASN][1000 genomes]
rs7023109	0.86[JPT][hapmap]
rs7030770	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7048177	1.00[JPT][hapmap]
rs72700659	0.83[ASN][1000 genomes]
rs72700660	0.83[ASN][1000 genomes]
rs72700662	0.83[ASN][1000 genomes]
rs7846987	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7855226	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7862248	0.82[ASN][1000 genomes]
rs7862255	0.87[ASN][1000 genomes]
rs7864179	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7870745	0.86[JPT][hapmap]
rs7873760	0.86[JPT][hapmap]
rs7874421	0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031340	chr9:15163004-15332769	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv436610	chr9:15256031-15262575	Weak transcription Enhancers Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
3	esv3410030	chr9:15256852-15262950	Enhancers Weak transcription Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15238400-15275400	Weak transcription	Fetal Intestine Large	intestine
2	chr9:15240400-15265600	Weak transcription	Rectal Smooth Muscle	rectum
3	chr9:15240600-15275400	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr9:15241200-15273400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr9:15241200-15286200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr9:15243000-15293400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr9:15244600-15273400	Weak transcription	Stomach Mucosa	stomach
8	chr9:15247000-15271400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr9:15249200-15265200	Weak transcription	Lung	lung
10	chr9:15249400-15268600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr9:15249600-15276200	Weak transcription	Fetal Kidney	kidney
12	chr9:15249800-15260000	Weak transcription	Left Ventricle	heart
13	chr9:15249800-15268400	Weak transcription	Psoas Muscle	Psoas
14	chr9:15249800-15276200	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr9:15250000-15265800	Weak transcription	Stomach Smooth Muscle	stomach
16	chr9:15250200-15268200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr9:15250200-15272200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr9:15250200-15288200	Weak transcription	Fetal Stomach	stomach
19	chr9:15250400-15260200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr9:15251000-15272000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr9:15251400-15273600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr9:15252200-15271800	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr9:15253400-15265200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
24	chr9:15253600-15272800	Weak transcription	Gastric	stomach
25	chr9:15253800-15286400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
26	chr9:15254000-15293000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr9:15254200-15271600	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr9:15254200-15275400	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr9:15254200-15276600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr9:15254200-15293000	Weak transcription	NHEK	skin
31	chr9:15254200-15295600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr9:15254600-15265400	Weak transcription	Liver	Liver
33	chr9:15254800-15265200	Weak transcription	HepG2	liver
34	chr9:15254800-15268400	Weak transcription	Adipose Nuclei	Adipose
35	chr9:15257000-15277800	Weak transcription	Fetal Lung	lung
36	chr9:15257200-15273600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr9:15257400-15259200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr9:15257400-15275200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr9:15258200-15259000	Strong transcription	Primary T cells from cord blood	blood
40	chr9:15258200-15259200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr9:15258200-15260000	Strong transcription	Primary T cells fromperipheralblood	blood
42	chr9:15258400-15259000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr9:15258600-15259600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr9:15258800-15261200	Weak transcription	Ovary	ovary
45	chr9:15258800-15261400	Weak transcription	Aorta	Aorta
46	chr9:15258800-15265200	Weak transcription	Fetal Intestine Small	intestine

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