Variant report

Variant	rs1562250
Chromosome Location	chr15:72818047-72818048
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:72815866..72818588-chr15:72824774..72827365,2	K562	blood:

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10438370	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs10518988	1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10744963	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10851858	0.81[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11072365	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11072372	0.85[MEX][hapmap]
rs11072376	1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs11072379	0.83[AMR][1000 genomes]
rs1133316	0.87[ASW][hapmap];0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1160608	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11631125	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11637103	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11638897	0.80[AFR][1000 genomes]
rs11855682	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12439018	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12441929	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs12900846	1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12901966	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs12908610	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12910393	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12913503	0.82[AMR][1000 genomes]
rs1374092	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2278694	0.93[ASW][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2415135	0.87[ASW][hapmap];0.91[LWK][hapmap];0.84[MEX][hapmap];0.93[MKK][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs2415139	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2415141	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3842946	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs4146285	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4146286	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs4776601	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4776602	0.84[AMR][1000 genomes]
rs4776603	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs4777512	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4777514	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs4777516	0.81[AMR][1000 genomes]
rs4777517	0.94[ASW][hapmap];1.00[LWK][hapmap];0.85[MEX][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs4777520	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6495011	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7167521	0.83[EUR][1000 genomes]
rs7174287	0.83[ASN][1000 genomes]
rs7177472	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7496556	0.81[ASW][hapmap];0.85[CEU][hapmap];0.83[AMR][1000 genomes]
rs8025088	0.94[YRI][hapmap];0.82[AFR][1000 genomes]
rs8026681	0.94[ASW][hapmap];0.96[LWK][hapmap];0.85[MEX][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs8030499	0.81[ASW][hapmap];0.81[MEX][hapmap]
rs8037282	0.94[ASW][hapmap];1.00[LWK][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs8038734	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs8038934	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3430860	chr15:72373723-72849907	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Strong transcription 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	172 gene(s)	inside rSNPs	diseases
2	nsv534037	chr15:72659210-72964029	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
3	nsv469704	chr15:72669374-72853927	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
4	nsv482685	chr15:72669374-72853927	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
5	nsv1050558	chr15:72739150-72860350	Weak transcription Strong transcription Enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
6	nsv542427	chr15:72739150-72860350	Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
7	nsv569947	chr15:72800853-72878772	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv1054626	chr15:72811402-72867502	Strong transcription Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
9	nsv569948	chr15:72811402-72878772	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72769600-72832200	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr15:72771600-72826000	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr15:72772600-72820800	Weak transcription	Thymus	Thymus
4	chr15:72773000-72819600	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr15:72775600-72832800	Weak transcription	Duodenum Mucosa	Duodenum
6	chr15:72782600-72828400	Weak transcription	K562	blood
7	chr15:72784600-72821400	Weak transcription	HUVEC	blood vessel
8	chr15:72789400-72821600	Weak transcription	Small Intestine	intestine
9	chr15:72790200-72821600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr15:72792200-72830800	Weak transcription	HSMM	muscle
11	chr15:72793200-72831400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr15:72794200-72833200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr15:72794400-72831600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr15:72795200-72826000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr15:72796400-72833000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr15:72796400-72833000	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr15:72796800-72855400	Weak transcription	Esophagus	oesophagus
18	chr15:72797000-72833000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr15:72797200-72821000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr15:72798200-72833000	Weak transcription	Gastric	stomach
21	chr15:72804000-72821600	Weak transcription	Right Atrium	heart
22	chr15:72804000-72828200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr15:72804200-72818800	Weak transcription	Psoas Muscle	Psoas
24	chr15:72804400-72825600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr15:72805600-72822600	Weak transcription	Liver	Liver
26	chr15:72805600-72824400	Weak transcription	Fetal Kidney	kidney
27	chr15:72805600-72848200	Weak transcription	Fetal Brain Male	brain
28	chr15:72805800-72818200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr15:72806400-72831600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr15:72806400-72833000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr15:72806600-72846800	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr15:72807000-72823600	Weak transcription	Spleen	Spleen
33	chr15:72807400-72818800	Weak transcription	Left Ventricle	heart
34	chr15:72807400-72821200	Weak transcription	Pancreas	Pancrea
35	chr15:72807600-72833000	Weak transcription	Fetal Intestine Large	intestine
36	chr15:72807800-72820400	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr15:72808000-72826800	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr15:72808200-72824200	Weak transcription	Fetal Brain Female	brain
39	chr15:72808400-72826000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr15:72808600-72819200	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr15:72808600-72821600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr15:72809000-72819600	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr15:72809000-72823200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr15:72809000-72825000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr15:72809000-72827800	Weak transcription	NHDF-Ad	bronchial
46	chr15:72809000-72833000	Weak transcription	Osteobl	bone
47	chr15:72809000-72855400	Weak transcription	Rectal Smooth Muscle	rectum
48	chr15:72809200-72825400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr15:72809200-72829400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr15:72809200-72832800	Weak transcription	Fetal Lung	lung

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