Variant report

Variant	rs10438370
Chromosome Location	chr15:72822876-72822877
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:72820906..72824054-chr15:72827920..72830897,3	MCF-7	breast:
2	chr15:72821404..72823570-chr15:72831025..72833392,2	MCF-7	breast:
3	chr15:72807734..72811960-chr15:72820715..72823953,3	K562	blood:
4	chr15:72803992..72807994-chr15:72821043..72823060,3	K562	blood:

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs10518988	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10851858	0.85[MEX][hapmap];0.82[AMR][1000 genomes]
rs11072372	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11072376	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1133316	0.85[MEX][hapmap]
rs11637103	0.83[AMR][1000 genomes]
rs11638897	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439018	0.84[AMR][1000 genomes]
rs12439127	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12900846	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12901966	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12910393	0.80[AMR][1000 genomes]
rs12917453	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13379630	0.82[JPT][hapmap]
rs1374092	0.83[AMR][1000 genomes]
rs1562250	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs16956866	0.88[JPT][hapmap]
rs16956899	0.88[JPT][hapmap]
rs16956956	0.82[EUR][1000 genomes]
rs16956988	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs16957064	0.90[CEU][hapmap];0.83[GIH][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs16957095	0.82[EUR][1000 genomes]
rs16957189	0.90[CEU][hapmap]
rs1808495	0.81[AMR][1000 genomes]
rs1812842	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1963894	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1972692	1.00[CHB][hapmap]
rs2278694	0.82[ASW][hapmap];0.82[AMR][1000 genomes]
rs2415135	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2415136	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2415137	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2415141	0.94[ASW][hapmap];0.85[LWK][hapmap];0.85[MEX][hapmap];0.88[MKK][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs28393893	0.89[EUR][1000 genomes]
rs28429820	0.83[ASN][1000 genomes]
rs28607101	0.83[ASN][1000 genomes]
rs3743230	0.88[JPT][hapmap]
rs3842946	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4078785	0.81[AMR][1000 genomes]
rs4146286	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4776601	0.83[AMR][1000 genomes]
rs4776602	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4776603	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4777512	0.81[AMR][1000 genomes]
rs4777514	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4777516	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4777517	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4777520	0.81[AMR][1000 genomes]
rs57155740	0.91[ASN][1000 genomes]
rs57769940	0.83[ASN][1000 genomes]
rs58110372	0.91[ASN][1000 genomes]
rs59029026	0.83[ASN][1000 genomes]
rs60106752	0.91[ASN][1000 genomes]
rs60207997	0.91[ASN][1000 genomes]
rs60702445	0.82[EUR][1000 genomes]
rs6495011	0.82[AMR][1000 genomes]
rs7162856	0.82[EUR][1000 genomes]
rs7174307	0.91[ASN][1000 genomes]
rs7174825	0.81[CEU][hapmap];0.83[GIH][hapmap]
rs7175376	0.90[CEU][hapmap];0.83[GIH][hapmap];1.00[TSI][hapmap]
rs7175437	0.91[ASN][1000 genomes]
rs7177472	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72735137	0.82[EUR][1000 genomes]
rs72735139	0.82[EUR][1000 genomes]
rs72735141	0.82[EUR][1000 genomes]
rs72735156	0.82[EUR][1000 genomes]
rs72735160	0.82[EUR][1000 genomes]
rs72735166	0.82[EUR][1000 genomes]
rs72735170	0.82[EUR][1000 genomes]
rs73442591	0.91[ASN][1000 genomes]
rs73442595	0.91[ASN][1000 genomes]
rs73444703	0.91[ASN][1000 genomes]
rs73444714	0.91[ASN][1000 genomes]
rs73444720	0.91[ASN][1000 genomes]
rs73444723	0.91[ASN][1000 genomes]
rs73444736	0.91[ASN][1000 genomes]
rs73444755	0.91[ASN][1000 genomes]
rs73444759	0.91[ASN][1000 genomes]
rs73444761	0.91[ASN][1000 genomes]
rs73444773	0.91[ASN][1000 genomes]
rs73444774	0.91[ASN][1000 genomes]
rs73444791	0.91[ASN][1000 genomes]
rs73444794	0.91[ASN][1000 genomes]
rs73444798	0.91[ASN][1000 genomes]
rs73444802	0.91[ASN][1000 genomes]
rs73446604	0.91[ASN][1000 genomes]
rs8024715	0.90[CEU][hapmap]
rs8025088	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8026681	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8035007	0.91[ASN][1000 genomes]
rs8037282	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.93[MKK][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8038734	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 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
10	esv2758386	chr15:72819785-73120560	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
11	esv2760039	chr15:72819785-73120560	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
12	nsv428307	chr15:72819785-73120560	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
13	esv3430383	chr15:72821093-73035167	Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

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	chr15:72775600-72832800	Weak transcription	Duodenum Mucosa	Duodenum
4	chr15:72782600-72828400	Weak transcription	K562	blood
5	chr15:72792200-72830800	Weak transcription	HSMM	muscle
6	chr15:72793200-72831400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr15:72794200-72833200	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr15:72794400-72831600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr15:72795200-72826000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr15:72796400-72833000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr15:72796400-72833000	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr15:72796800-72855400	Weak transcription	Esophagus	oesophagus
13	chr15:72797000-72833000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr15:72798200-72833000	Weak transcription	Gastric	stomach
15	chr15:72804000-72828200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr15:72804400-72825600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr15:72805600-72824400	Weak transcription	Fetal Kidney	kidney
18	chr15:72805600-72848200	Weak transcription	Fetal Brain Male	brain
19	chr15:72806400-72831600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr15:72806400-72833000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr15:72806600-72846800	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr15:72807000-72823600	Weak transcription	Spleen	Spleen
23	chr15:72807600-72833000	Weak transcription	Fetal Intestine Large	intestine
24	chr15:72808000-72826800	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr15:72808200-72824200	Weak transcription	Fetal Brain Female	brain
26	chr15:72808400-72826000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr15:72809000-72823200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr15:72809000-72825000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr15:72809000-72827800	Weak transcription	NHDF-Ad	bronchial
30	chr15:72809000-72833000	Weak transcription	Osteobl	bone
31	chr15:72809000-72855400	Weak transcription	Rectal Smooth Muscle	rectum
32	chr15:72809200-72825400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr15:72809200-72829400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr15:72809200-72832800	Weak transcription	Fetal Lung	lung
35	chr15:72809400-72833000	Weak transcription	Adipose Nuclei	Adipose
36	chr15:72809600-72833000	Weak transcription	HSMMtube	muscle
37	chr15:72811400-72833200	Weak transcription	Right Ventricle	heart
38	chr15:72813600-72823200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr15:72813600-72831400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr15:72814400-72825000	Weak transcription	NHEK	skin
41	chr15:72814400-72825800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr15:72814400-72830800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr15:72814400-72831800	Weak transcription	Primary B cells from peripheral blood	blood
44	chr15:72814400-72847000	Weak transcription	Ovary	ovary
45	chr15:72814800-72827600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr15:72814800-72829800	Weak transcription	Brain Substantia Nigra	brain
47	chr15:72814800-72833000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr15:72814800-72859200	Weak transcription	Brain Angular Gyrus	brain
49	chr15:72815400-72830600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
50	chr15:72815600-72827000	Weak transcription	GM12878-XiMat	blood

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