Variant report

Variant	rs12899673
Chromosome Location	chr15:92561644-92561645
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12593984	0.83[JPT][hapmap]
rs12904266	0.91[CEU][hapmap]
rs12905838	0.91[CEU][hapmap];0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12905905	0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs12905912	0.81[CEU][hapmap];0.83[JPT][hapmap]
rs12906289	0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs12912272	0.80[CEU][hapmap]
rs12912997	0.85[CEU][hapmap];0.83[JPT][hapmap]
rs12913189	0.85[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs35000646	0.86[ASN][1000 genomes]
rs57842850	0.92[ASN][1000 genomes]
rs62011574	0.86[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs62011580	0.87[ASN][1000 genomes]
rs71411125	0.86[ASN][1000 genomes]
rs7163548	0.85[ASN][1000 genomes]
rs7166185	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7178378	0.83[JPT][hapmap]
rs7181178	0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs8040010	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 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

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92550800-92562600	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr15:92552800-92561800	Weak transcription	Psoas Muscle	Psoas
3	chr15:92554200-92566200	Enhancers	Right Atrium	heart
4	chr15:92555400-92564200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr15:92555600-92563200	Enhancers	Brain Cingulate Gyrus	brain
6	chr15:92555600-92563200	Enhancers	Brain Hippocampus Middle	brain
7	chr15:92555600-92564000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr15:92555600-92565600	Weak transcription	Gastric	stomach
9	chr15:92555600-92570600	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr15:92555600-92576200	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr15:92555800-92564200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr15:92556000-92564200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr15:92556800-92565000	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr15:92556800-92565200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr15:92557000-92562800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr15:92557800-92567000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr15:92558000-92562600	Enhancers	Spleen	Spleen
18	chr15:92558000-92571200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr15:92558400-92561800	Weak transcription	Brain Anterior Caudate	brain
20	chr15:92558600-92568600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr15:92559000-92562600	Weak transcription	Aorta	Aorta
22	chr15:92559200-92562200	Weak transcription	Brain Substantia Nigra	brain
23	chr15:92559200-92564000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr15:92559400-92564400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr15:92560600-92562200	Enhancers	Primary T cells fromperipheralblood	blood
26	chr15:92560800-92563400	Enhancers	Left Ventricle	heart
27	chr15:92561000-92561800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
28	chr15:92561000-92562000	Flanking Active TSS	Fetal Heart	heart
29	chr15:92561000-92562600	Enhancers	Lung	lung
30	chr15:92561000-92562800	Enhancers	Esophagus	oesophagus
31	chr15:92561000-92562800	Enhancers	Ovary	ovary
32	chr15:92561000-92563400	Enhancers	Right Ventricle	heart
33	chr15:92561200-92561800	Enhancers	Brain Angular Gyrus	brain
34	chr15:92561200-92562000	Enhancers	Brain Inferior Temporal Lobe	brain
35	chr15:92561400-92565200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
36	chr15:92561600-92562600	Enhancers	Primary T helper cells PMA-I stimulated	--
37	chr15:92561600-92562800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr15:92561600-92563000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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