Variant report

Variant	rs11638909
Chromosome Location	chr15:34567342-34567343
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10519916	1.00[ASW][hapmap];0.81[CEU][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs11630291	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16958873	0.95[GIH][hapmap];0.85[TSI][hapmap]
rs16958875	0.95[GIH][hapmap];0.85[TSI][hapmap]
rs17236749	0.86[MEX][hapmap]
rs17236770	0.81[CEU][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap]
rs17817770	0.86[MEX][hapmap]
rs3764236	0.86[MEX][hapmap]
rs3794517	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3794518	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4779660	0.95[GIH][hapmap]
rs7161944	0.86[MEX][hapmap]
rs7177365	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74010034	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs74010036	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs74010045	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74010046	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs74010055	0.83[AFR][1000 genomes]
rs74010057	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs74010058	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8028501	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs8039731	1.00[YRI][hapmap]
rs8043447	0.87[LWK][hapmap];0.85[YRI][hapmap]
rs991076	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052804	chr15:34498529-34841447	Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv542341	chr15:34498529-34841447	Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv1045173	chr15:34501055-34596995	Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	esv1798578	chr15:34543021-34988247	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
5	esv1804312	chr15:34543021-34988247	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
6	esv1821622	chr15:34543021-34988247	Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
7	esv1850950	chr15:34543021-34988247	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
8	esv2758376	chr15:34543021-34988247	Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
9	esv2760024	chr15:34543021-34988247	Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
10	nsv428303	chr15:34543021-34988247	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
11	nsv1036475	chr15:34552879-34841587	Bivalent/Poised TSS Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
12	nsv542342	chr15:34552879-34841587	Active TSS Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
13	nsv1048550	chr15:34553078-34841447	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
14	nsv542343	chr15:34553078-34841447	Active TSS Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
15	nsv471682	chr15:34560451-34882630	Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34518000-34571800	Weak transcription	Stomach Mucosa	stomach
2	chr15:34543000-34568200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr15:34546800-34567400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr15:34546800-34568000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr15:34546800-34569400	Weak transcription	Ovary	ovary
6	chr15:34546800-34571800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr15:34546800-34573800	Weak transcription	HUVEC	blood vessel
8	chr15:34547600-34591200	Weak transcription	Aorta	Aorta
9	chr15:34548200-34592600	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr15:34549200-34567400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr15:34549200-34571200	Weak transcription	Left Ventricle	heart
12	chr15:34550000-34587400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr15:34551000-34567400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr15:34551200-34567400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr15:34551200-34569400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr15:34551200-34577000	Weak transcription	Duodenum Mucosa	Duodenum
17	chr15:34551200-34608800	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr15:34551400-34577200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr15:34552200-34570800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr15:34555200-34584200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr15:34555200-34584600	Weak transcription	Esophagus	oesophagus
22	chr15:34555200-34606600	Weak transcription	Thymus	Thymus
23	chr15:34559800-34567400	Weak transcription	A549	lung
24	chr15:34560200-34568000	Strong transcription	Monocytes-CD14+_RO01746	blood
25	chr15:34562400-34584000	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr15:34563000-34569400	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr15:34563800-34567400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr15:34564000-34567400	Weak transcription	NHEK	skin
29	chr15:34564000-34567600	Weak transcription	NHDF-Ad	bronchial
30	chr15:34564000-34577000	Weak transcription	Fetal Heart	heart
31	chr15:34564200-34567400	Weak transcription	Osteobl	bone
32	chr15:34564200-34567600	Weak transcription	NHLF	lung
33	chr15:34564600-34567400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr15:34564600-34569800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr15:34565000-34584600	Weak transcription	Primary hematopoietic stem cells	blood
36	chr15:34565200-34575400	Weak transcription	GM12878-XiMat	blood
37	chr15:34565200-34575600	Weak transcription	Primary B cells from cord blood	blood
38	chr15:34565200-34575600	Weak transcription	Primary T cells from cord blood	blood
39	chr15:34565200-34584600	Weak transcription	Primary monocytes fromperipheralblood	blood
40	chr15:34565600-34583200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr15:34566000-34570400	Enhancers	Hela-S3	cervix
42	chr15:34566200-34567600	Strong transcription	Primary T helper cells PMA-I stimulated	--
43	chr15:34566200-34584600	Weak transcription	Primary B cells from peripheral blood	blood
44	chr15:34566400-34583400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr15:34566600-34567600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr15:34566800-34584600	Weak transcription	Liver	Liver
47	chr15:34567000-34567600	Enhancers	Muscle Satellite Cultured Cells	--
48	chr15:34567200-34567600	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr15:34567200-34569200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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