Variant report

Variant	rs1365772
Chromosome Location	chr15:58894308-58894309
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	chr15:58888127..58890448-chr15:58892630..58894989,2	MCF-7	breast:

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10851639	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];1.00[ASN][1000 genomes]
rs11071392	0.80[ASN][1000 genomes]
rs11071396	0.81[CHB][hapmap]
rs11853043	0.85[MKK][hapmap];0.84[YRI][hapmap]
rs12437552	0.82[LWK][hapmap]
rs12438114	0.84[CHB][hapmap]
rs12438487	0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs12438810	0.80[ASN][1000 genomes]
rs12439189	1.00[CHB][hapmap];0.98[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs12591291	0.84[ASN][1000 genomes]
rs12591543	0.81[ASN][1000 genomes]
rs12592332	0.80[CHD][hapmap]
rs12592750	0.82[ASN][1000 genomes]
rs12905173	0.82[ASN][1000 genomes]
rs12906705	0.82[CHD][hapmap];0.83[JPT][hapmap]
rs12908449	0.83[ASN][1000 genomes]
rs12912286	0.80[CHD][hapmap];0.80[ASN][1000 genomes]
rs12915950	0.80[ASN][1000 genomes]
rs16940587	0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs16940589	0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs16940651	0.80[CHD][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs1820548	0.84[ASN][1000 genomes]
rs1869133	0.82[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.92[MKK][hapmap];0.97[TSI][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1869135	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.94[TSI][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2052805	0.82[CHD][hapmap]
rs2081703	0.95[CHB][hapmap];0.98[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.82[MEX][hapmap];0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2303532	0.81[ASN][1000 genomes]
rs2305421	0.80[CHD][hapmap];0.82[ASN][1000 genomes]
rs2414606	1.00[YRI][hapmap]
rs28417700	0.83[ASN][1000 genomes]
rs28455654	0.80[CHD][hapmap]
rs28457680	0.83[ASN][1000 genomes]
rs28573205	0.82[ASN][1000 genomes]
rs28584993	0.83[ASN][1000 genomes]
rs28600144	0.84[ASN][1000 genomes]
rs28639679	0.80[ASN][1000 genomes]
rs28678478	0.83[ASN][1000 genomes]
rs3751542	0.87[MEX][hapmap]
rs3764196	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4562992	0.87[MEX][hapmap]
rs4775084	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6494030	0.80[CHD][hapmap];0.80[ASN][1000 genomes]
rs6494031	0.80[CHD][hapmap];0.81[ASN][1000 genomes]
rs664936	0.90[TSI][hapmap]
rs7162952	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7163733	0.83[JPT][hapmap]
rs7164620	0.84[ASN][1000 genomes]
rs7165035	0.84[ASN][1000 genomes]
rs7165259	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7165402	0.80[CHD][hapmap]
rs7166076	0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs7166325	0.83[JPT][hapmap]
rs7173286	1.00[YRI][hapmap]
rs7174386	0.80[CHD][hapmap]
rs7174414	0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs7175421	0.91[MEX][hapmap]
rs7176436	0.89[LWK][hapmap];0.82[MKK][hapmap];1.00[YRI][hapmap]
rs7180550	0.84[ASN][1000 genomes]
rs8033565	0.82[ASN][1000 genomes]
rs8036005	0.84[ASN][1000 genomes]
rs8039791	0.80[CHD][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs9635351	0.80[ASN][1000 genomes]
rs9646204	0.88[MKK][hapmap]
rs9744518	0.80[ASN][1000 genomes]
rs9920042	0.84[ASN][1000 genomes]
rs9920720	0.83[JPT][hapmap]
rs9921024	0.82[JPT][hapmap];0.84[ASN][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	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers 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 target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers 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	50 gene(s)	inside rSNPs	diseases
3	nsv1551	chr15:58891639-58936580	Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58878000-58898400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr15:58878000-58900000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr15:58878000-58900000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr15:58878400-58897800	Weak transcription	Brain Cingulate Gyrus	brain
5	chr15:58878400-58900200	Weak transcription	Brain Substantia Nigra	brain
6	chr15:58878600-58900200	Weak transcription	NHLF	lung
7	chr15:58878800-58904400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr15:58880200-58904600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr15:58880600-58920600	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr15:58882600-58904000	Weak transcription	Gastric	stomach
11	chr15:58882600-58907600	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr15:58883000-58901800	Weak transcription	HUVEC	blood vessel
13	chr15:58883200-58900400	Weak transcription	Fetal Heart	heart
14	chr15:58883200-58904600	Strong transcription	HSMM	muscle
15	chr15:58883400-58900000	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr15:58883800-58896600	Weak transcription	HepG2	liver
17	chr15:58884000-58894400	Weak transcription	Aorta	Aorta
18	chr15:58884000-58895400	Strong transcription	Fetal Thymus	thymus
19	chr15:58884200-58894400	Weak transcription	Fetal Stomach	stomach
20	chr15:58884200-58894600	Weak transcription	Esophagus	oesophagus
21	chr15:58884400-58896200	Weak transcription	Lung	lung
22	chr15:58884400-58902600	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr15:58884600-58895600	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr15:58885200-58897000	Weak transcription	Colon Smooth Muscle	Colon
25	chr15:58885600-58897400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr15:58885800-58896200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr15:58885800-58906800	Weak transcription	Fetal Brain Male	brain
28	chr15:58886400-58899800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
29	chr15:58887200-58906600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr15:58887400-58898200	Weak transcription	Brain Angular Gyrus	brain
31	chr15:58887600-58897600	Strong transcription	Primary T helper cells fromperipheralblood	blood
32	chr15:58887800-58905200	Weak transcription	Brain Germinal Matrix	brain
33	chr15:58888000-58906200	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr15:58888400-58900400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr15:58888400-58920000	Weak transcription	Rectal Smooth Muscle	rectum
36	chr15:58888600-58899600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr15:58889000-58900200	Weak transcription	Right Ventricle	heart
38	chr15:58889200-58900400	Weak transcription	NH-A	brain
39	chr15:58889600-58894400	Weak transcription	Psoas Muscle	Psoas
40	chr15:58889600-58895400	Weak transcription	K562	blood
41	chr15:58889600-58902000	Weak transcription	HMEC	breast
42	chr15:58889600-58904600	Weak transcription	Colonic Mucosa	Colon
43	chr15:58889600-58905200	Weak transcription	Fetal Brain Female	brain
44	chr15:58889600-58919800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr15:58889800-58894400	Weak transcription	HSMMtube	muscle
46	chr15:58889800-58895000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr15:58889800-58895400	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr15:58889800-58895600	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr15:58889800-58896600	Weak transcription	Adipose Nuclei	Adipose
50	chr15:58889800-58899200	Weak transcription	Hela-S3	cervix

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