Variant report

Variant	rs12906289
Chromosome Location	chr15:92564506-92564507
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:92562839..92565166-chr15:92567346..92570436,4	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10468145	0.81[GIH][hapmap];0.84[JPT][hapmap]
rs12899673	0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs12903900	0.81[CHD][hapmap];0.81[GIH][hapmap];0.84[JPT][hapmap]
rs12905838	0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs12905905	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12905912	0.81[GIH][hapmap]
rs12913189	0.93[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs1983351	0.84[JPT][hapmap]
rs35000646	0.83[ASN][1000 genomes]
rs3896097	0.95[YRI][hapmap]
rs57842850	0.95[ASN][1000 genomes]
rs62011580	0.85[ASN][1000 genomes]
rs71411125	0.84[ASN][1000 genomes]
rs7163548	0.82[ASN][1000 genomes]
rs7166185	0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs7181178	0.93[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs7495052	0.81[CHD][hapmap];0.84[JPT][hapmap]

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	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv534110	chr15:92397220-92592961	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv984212	chr15:92562075-92570410	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92554200-92566200	Enhancers	Right Atrium	heart
2	chr15:92555600-92565600	Weak transcription	Gastric	stomach
3	chr15:92555600-92570600	Weak transcription	Monocytes-CD14+_RO01746	blood
4	chr15:92555600-92576200	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr15:92556800-92565000	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr15:92556800-92565200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr15:92557800-92567000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr15:92558000-92571200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr15:92558600-92568600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr15:92561400-92565200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
11	chr15:92561800-92564600	Enhancers	Pancreas	Pancrea
12	chr15:92561800-92565000	Weak transcription	Brain Angular Gyrus	brain
13	chr15:92562000-92567800	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr15:92562200-92565000	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr15:92562400-92564800	Weak transcription	Brain Anterior Caudate	brain
16	chr15:92562600-92570600	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr15:92562800-92565400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr15:92562800-92565800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr15:92562800-92566400	Enhancers	Adipose Nuclei	Adipose
20	chr15:92562800-92569600	Enhancers	Fetal Heart	heart
21	chr15:92562800-92574600	Weak transcription	Esophagus	oesophagus
22	chr15:92563000-92564800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr15:92563200-92564600	Weak transcription	Brain Hippocampus Middle	brain
24	chr15:92563200-92564800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr15:92563200-92565000	Weak transcription	Lung	lung
26	chr15:92563400-92566000	Weak transcription	Left Ventricle	heart
27	chr15:92563600-92565400	Enhancers	Ovary	ovary
28	chr15:92563800-92565200	Enhancers	Spleen	Spleen
29	chr15:92563800-92567000	Weak transcription	Brain Substantia Nigra	brain
30	chr15:92563800-92568200	Enhancers	Aorta	Aorta
31	chr15:92564000-92566200	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr15:92564000-92567200	Weak transcription	Brain Cingulate Gyrus	brain
33	chr15:92564200-92565200	Enhancers	Primary T helper naive cells from peripheral blood	blood
34	chr15:92564200-92565200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
35	chr15:92564200-92565400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
36	chr15:92564400-92564600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
37	chr15:92564400-92564600	Enhancers	Small Intestine	intestine
38	chr15:92564400-92565000	Weak transcription	Right Ventricle	heart
39	chr15:92564400-92565000	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr15:92564400-92565200	Enhancers	Primary T helper cells PMA-I stimulated	--
41	chr15:92564400-92565200	Enhancers	Primary T helper cells fromperipheralblood	blood
42	chr15:92564400-92565400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
43	chr15:92564400-92565800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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