Variant report

Variant	rs28857572
Chromosome Location	chr15:34584479-34584480
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10152189	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10152222	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10152351	0.88[AFR][1000 genomes]
rs10152407	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10162625	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10467958	0.90[AFR][1000 genomes]
rs10467959	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10468070	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12324422	0.88[AFR][1000 genomes]
rs12324469	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13379654	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13380356	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13380366	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16958911	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16958950	0.92[AFR][1000 genomes]
rs2615359	1.00[EUR][1000 genomes]
rs2705349	1.00[EUR][1000 genomes]
rs2705350	1.00[EUR][1000 genomes]
rs28442188	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28543997	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28608058	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28664278	0.81[AFR][1000 genomes]
rs28762482	0.92[AFR][1000 genomes]
rs28807170	0.92[AFR][1000 genomes]
rs28871951	0.92[AFR][1000 genomes]
rs347815	1.00[EUR][1000 genomes]
rs56964418	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57044113	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57573060	0.88[AFR][1000 genomes]
rs58198195	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59662878	0.85[AFR][1000 genomes]
rs60708162	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61659679	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6495649	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6495650	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6495651	0.92[AFR][1000 genomes]
rs6495652	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6495653	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6495654	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6495655	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6495656	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6495657	0.90[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs6495658	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6495659	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7165738	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7165973	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7166559	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7167363	0.88[AFR][1000 genomes]
rs7167379	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7168029	0.88[AFR][1000 genomes]
rs7168168	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7168361	0.92[AFR][1000 genomes]
rs7168606	0.88[AFR][1000 genomes]
rs7168707	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7169802	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7170829	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7175327	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7175736	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7176138	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7183736	0.88[AFR][1000 genomes]
rs8023999	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8024424	0.88[AFR][1000 genomes]
rs8024443	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8025075	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8026499	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8029788	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8030737	0.88[AFR][1000 genomes]
rs8032579	0.92[AFR][1000 genomes]
rs8033545	0.86[AFR][1000 genomes]
rs8035044	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8036094	0.82[AFR][1000 genomes]
rs8038493	0.88[AFR][1000 genomes]
rs8039233	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8039356	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8042422	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8042605	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9806767	0.88[AFR][1000 genomes]
rs9806778	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9989297	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 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
16	nsv1051403	chr15:34573065-34600474	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34547600-34591200	Weak transcription	Aorta	Aorta
2	chr15:34548200-34592600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr15:34550000-34587400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr15:34551200-34608800	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr15:34555200-34584600	Weak transcription	Esophagus	oesophagus
6	chr15:34555200-34606600	Weak transcription	Thymus	Thymus
7	chr15:34565000-34584600	Weak transcription	Primary hematopoietic stem cells	blood
8	chr15:34565200-34584600	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr15:34566200-34584600	Weak transcription	Primary B cells from peripheral blood	blood
10	chr15:34566800-34584600	Weak transcription	Liver	Liver
11	chr15:34568000-34584600	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr15:34568200-34584600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr15:34576200-34584800	Weak transcription	GM12878-XiMat	blood
14	chr15:34577600-34590800	Weak transcription	Primary T cells from cord blood	blood
15	chr15:34577600-34608800	Weak transcription	Duodenum Mucosa	Duodenum
16	chr15:34577600-34610200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr15:34577800-34584600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr15:34577800-34589600	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr15:34577800-34593200	Weak transcription	HepG2	liver
20	chr15:34577800-34608800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr15:34578000-34584600	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr15:34578000-34589600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr15:34578200-34606800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
24	chr15:34579000-34603800	Weak transcription	Primary T cells fromperipheralblood	blood
25	chr15:34582200-34599000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr15:34582400-34584600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr15:34582600-34586200	Weak transcription	Stomach Smooth Muscle	stomach
28	chr15:34582600-34609600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr15:34582600-34610200	Weak transcription	Fetal Lung	lung
30	chr15:34583200-34585000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr15:34583200-34588800	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr15:34583400-34585000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr15:34583400-34588800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr15:34583400-34609600	Weak transcription	Adipose Nuclei	Adipose
35	chr15:34583600-34586600	Weak transcription	Colonic Mucosa	Colon
36	chr15:34583600-34593600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr15:34583800-34584600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr15:34583800-34610600	Weak transcription	Pancreas	Pancrea
39	chr15:34584000-34585200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr15:34584000-34586400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr15:34584000-34586600	Strong transcription	Primary neutrophils fromperipheralblood	blood
42	chr15:34584200-34584800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
43	chr15:34584400-34584600	Weak transcription	Lung	lung
44	chr15:34584400-34586200	Strong transcription	Primary B cells from cord blood	blood
45	chr15:34584400-34587000	ZNF genes & repeats	Fetal Intestine Small	intestine

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