Variant report

Variant	rs7045339
Chromosome Location	chr9:26986508-26986509
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs10511796	1.00[CEU][hapmap];0.84[CHB][hapmap];0.97[EUR][1000 genomes]
rs10511798	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10812490	0.87[AMR][1000 genomes]
rs10812491	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs10812494	0.80[JPT][hapmap];0.82[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs10812495	0.82[AMR][1000 genomes]
rs10812502	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10812505	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10812506	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10812509	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10812510	1.00[CEU][hapmap];0.95[CHB][hapmap];0.80[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10812513	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10812514	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10812517	1.00[CEU][hapmap];0.84[CHB][hapmap];0.80[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10812522	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10812524	0.88[EUR][1000 genomes]
rs10967581	0.82[YRI][hapmap];0.83[AMR][1000 genomes]
rs10967586	0.84[CHB][hapmap]
rs10967597	0.82[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs10967599	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10967602	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10967609	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10967611	1.00[CEU][hapmap];0.82[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10967612	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10967614	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10967621	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10967622	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10967623	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10967627	1.00[CEU][hapmap];0.95[CHB][hapmap];0.80[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10967630	1.00[CEU][hapmap];0.95[CHB][hapmap];0.80[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10967633	1.00[CEU][hapmap];0.95[CHB][hapmap];0.80[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10967635	1.00[CEU][hapmap];0.95[CHB][hapmap];0.84[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10967636	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10967645	0.85[JPT][hapmap];0.86[ASN][1000 genomes]
rs10967646	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10967649	1.00[CEU][hapmap];0.90[CHB][hapmap];0.83[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10967650	1.00[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10967651	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10967661	1.00[CEU][hapmap];0.89[CHB][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10967662	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10967666	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10967668	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10967669	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10967672	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10967673	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10967678	1.00[CEU][hapmap];0.85[CHB][hapmap];0.85[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10967681	1.00[CEU][hapmap];0.84[CHB][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10967682	0.89[EUR][1000 genomes]
rs10967688	1.00[CEU][hapmap];0.85[CHB][hapmap];0.80[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10967694	0.91[EUR][1000 genomes]
rs10967695	0.91[EUR][1000 genomes]
rs10967699	0.88[EUR][1000 genomes]
rs10967701	0.88[EUR][1000 genomes]
rs10967717	1.00[CEU][hapmap]
rs10967719	1.00[CEU][hapmap]
rs11534184	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11534185	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11555693	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11562224	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12235490	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12236404	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12236850	1.00[CEU][hapmap];0.89[CHB][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12237867	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12684983	0.88[EUR][1000 genomes]
rs1336337	0.82[CHB][hapmap]
rs17760820	0.84[CHB][hapmap]
rs17833941	0.82[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs3737226	0.90[CHB][hapmap];0.80[JPT][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3739544	1.00[CEU][hapmap];0.95[CHB][hapmap];0.80[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3739547	0.84[CHB][hapmap];0.84[JPT][hapmap];0.82[YRI][hapmap];0.83[AMR][1000 genomes]
rs3739548	0.83[AMR][1000 genomes]
rs3739550	0.85[CHB][hapmap];0.80[JPT][hapmap]
rs4413873	0.81[ASN][1000 genomes]
rs55827505	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55860736	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs55870543	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56307252	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs56903929	0.88[EUR][1000 genomes]
rs57450012	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57692080	0.88[EUR][1000 genomes]
rs60281060	0.91[EUR][1000 genomes]
rs60841248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7019034	0.90[CHB][hapmap];0.80[JPT][hapmap];0.82[YRI][hapmap];0.83[AMR][1000 genomes]
rs7019075	0.81[AMR][1000 genomes]
rs7024327	0.91[EUR][1000 genomes]
rs7031903	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7031984	1.00[CEU][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7034888	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7034899	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7035447	1.00[CEU][hapmap];0.95[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72703105	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72719536	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72719538	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7857447	0.84[CHB][hapmap];0.80[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7857466	0.90[CHB][hapmap];0.80[JPT][hapmap];0.83[AMR][1000 genomes]
rs7857990	0.82[YRI][hapmap];0.83[AMR][1000 genomes]
rs7865952	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7869798	1.00[CEU][hapmap];0.84[CHB][hapmap];0.94[EUR][1000 genomes]
rs7873073	0.90[CHB][hapmap];0.84[JPT][hapmap];0.82[YRI][hapmap];0.83[AMR][1000 genomes]
rs7874940	1.00[CEU][hapmap];0.95[CHB][hapmap];0.80[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7875171	1.00[CEU][hapmap];0.95[CHB][hapmap];0.80[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9644870	1.00[CEU][hapmap];0.84[CHB][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]

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	nsv528614	chr9:26893662-27074233	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv517269	chr9:26945976-27137242	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv892862	chr9:26956663-27190655	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:26957000-27024000	Weak transcription	Esophagus	oesophagus
2	chr9:26957200-27026600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr9:26957200-27040000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr9:26969000-26991200	Weak transcription	NHDF-Ad	bronchial
5	chr9:26969600-26986600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr9:26970800-26990000	Weak transcription	Spleen	Spleen
7	chr9:26972200-26995000	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr9:26972800-26986800	Weak transcription	Aorta	Aorta
9	chr9:26972800-26990600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr9:26974200-27023600	Weak transcription	Fetal Brain Female	brain
11	chr9:26976200-27003600	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr9:26976600-26996800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr9:26976800-26993000	Weak transcription	Osteobl	bone
14	chr9:26976800-27017800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr9:26977000-26997000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr9:26977200-27019400	Weak transcription	NH-A	brain
17	chr9:26977400-26992200	Weak transcription	HMEC	breast
18	chr9:26977400-26994400	Weak transcription	NHEK	skin
19	chr9:26977400-26998600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr9:26977800-26996800	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr9:26977800-27026000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr9:26978000-26989400	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr9:26979400-26993200	Weak transcription	Gastric	stomach
24	chr9:26979400-27024000	Weak transcription	Small Intestine	intestine
25	chr9:26979600-26992600	Weak transcription	Brain Germinal Matrix	brain
26	chr9:26980200-26986600	Strong transcription	Liver	Liver
27	chr9:26980200-26987800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr9:26980400-26989400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr9:26981000-26986600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr9:26981000-26986800	Strong transcription	Ovary	ovary
31	chr9:26981000-26992800	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr9:26981600-26986800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr9:26982200-26986600	Strong transcription	Adipose Nuclei	Adipose
34	chr9:26982800-26986600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr9:26982800-26995200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
36	chr9:26982800-27023800	Weak transcription	Lung	lung
37	chr9:26983000-26987600	Strong transcription	Stomach Smooth Muscle	stomach
38	chr9:26983000-26987800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr9:26983000-26991200	Weak transcription	Fetal Intestine Small	intestine
40	chr9:26983200-26988000	Weak transcription	HUVEC	blood vessel
41	chr9:26983400-26986800	Strong transcription	Rectal Mucosa Donor 29	rectum
42	chr9:26983600-27023800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr9:26984200-26986800	Weak transcription	GM12878-XiMat	blood
44	chr9:26984200-26987200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr9:26984600-26987200	Strong transcription	Fetal Muscle Trunk	muscle
46	chr9:26984600-26987600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr9:26985000-26987200	Strong transcription	HSMMtube	muscle
48	chr9:26985000-26992400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr9:26985200-26987600	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr9:26985200-26988800	Weak transcription	Placenta	Placenta

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