Variant report

Variant	rs12343442
Chromosome Location	chr9:15212216-15212217
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10217576	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10961915	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs10961916	0.89[LWK][hapmap]
rs10961918	0.85[EUR][1000 genomes]
rs10961923	0.95[CEU][hapmap];1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.84[EUR][1000 genomes]
rs12377170	0.90[CEU][hapmap];1.00[CHB][hapmap];0.81[GIH][hapmap];0.82[JPT][hapmap]
rs2146864	0.80[EUR][1000 genomes]
rs4741479	0.82[CEU][hapmap]
rs480635	0.81[EUR][1000 genomes]
rs513270	0.95[CEU][hapmap];1.00[CHB][hapmap];0.81[GIH][hapmap];0.82[JPT][hapmap];0.80[EUR][1000 genomes]
rs591647	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs654202	0.82[EUR][1000 genomes]
rs68152174	0.87[EUR][1000 genomes]
rs7033069	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs7041937	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15163000-15233000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr9:15171000-15228600	Weak transcription	Stomach Mucosa	stomach
3	chr9:15177000-15213000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr9:15179400-15221000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr9:15182200-15229200	Weak transcription	Gastric	stomach
6	chr9:15185600-15225800	Weak transcription	Pancreas	Pancrea
7	chr9:15192200-15229200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr9:15192400-15223200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr9:15192600-15213000	Weak transcription	Small Intestine	intestine
10	chr9:15193400-15249600	Weak transcription	Colonic Mucosa	Colon
11	chr9:15196000-15214200	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr9:15197000-15213000	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr9:15197200-15223000	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr9:15197200-15225000	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr9:15202000-15217400	Weak transcription	Esophagus	oesophagus
16	chr9:15206000-15214200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr9:15206000-15220800	Weak transcription	Lung	lung
18	chr9:15206000-15222800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr9:15206000-15223000	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr9:15206000-15229200	Weak transcription	Ovary	ovary
21	chr9:15206400-15221000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr9:15207600-15225600	Weak transcription	Primary B cells from peripheral blood	blood
23	chr9:15207800-15214400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr9:15207800-15223000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr9:15209600-15223000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr9:15210000-15231800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr9:15210200-15212400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr9:15210600-15226200	Weak transcription	Primary hematopoietic stem cells	blood
29	chr9:15211000-15212400	Enhancers	Pancreatic Islets	Pancreatic Islet
30	chr9:15211000-15212400	Enhancers	Osteobl	bone
31	chr9:15211000-15222400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr9:15211200-15212400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr9:15211200-15212400	Enhancers	Fetal Lung	lung
34	chr9:15211200-15212600	Enhancers	Duodenum Mucosa	Duodenum
35	chr9:15211200-15212800	Enhancers	Liver	Liver
36	chr9:15211200-15213000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr9:15211200-15216000	Weak transcription	Primary T helper cells fromperipheralblood	blood
38	chr9:15211200-15222000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr9:15211400-15212400	Enhancers	HUES48 Cell Line	embryonic stem cell
40	chr9:15211400-15212400	Enhancers	Duodenum Smooth Muscle	Duodenum
41	chr9:15211400-15213000	Weak transcription	Primary T cells from cord blood	blood
42	chr9:15211400-15213400	Enhancers	HepG2	liver
43	chr9:15211400-15213800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr9:15211400-15216200	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr9:15211400-15216400	Weak transcription	Primary T cells fromperipheralblood	blood
46	chr9:15211400-15222600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr9:15211400-15222600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chr9:15211400-15229000	Weak transcription	Primary T helper cells PMA-I stimulated	--
49	chr9:15211400-15229000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr9:15211600-15214400	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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