Variant report

Variant	rs12439563
Chromosome Location	chr15:56917282-56917283
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10518855	0.83[EUR][1000 genomes]
rs10518872	0.94[EUR][1000 genomes]
rs1087705	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11071285	1.00[EUR][1000 genomes]
rs12437735	0.89[EUR][1000 genomes]
rs12438377	0.89[EUR][1000 genomes]
rs12438728	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12439116	1.00[EUR][1000 genomes]
rs12439586	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12439697	0.89[EUR][1000 genomes]
rs12440006	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12441746	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12441769	0.89[EUR][1000 genomes]
rs12441792	0.84[EUR][1000 genomes]
rs12442069	0.89[EUR][1000 genomes]
rs12443178	1.00[EUR][1000 genomes]
rs12903143	1.00[EUR][1000 genomes]
rs12907983	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1364541	0.90[EUR][1000 genomes]
rs1564557	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1586022	0.89[EUR][1000 genomes]
rs1600829	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1600831	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1631905	0.89[EUR][1000 genomes]
rs1647386	0.89[EUR][1000 genomes]
rs1647391	0.89[EUR][1000 genomes]
rs16977123	0.89[EUR][1000 genomes]
rs17238859	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17238880	0.94[EUR][1000 genomes]
rs17238894	0.89[EUR][1000 genomes]
rs17238901	0.89[EUR][1000 genomes]
rs17819562	1.00[AFR][1000 genomes]
rs17819592	1.00[EUR][1000 genomes]
rs17819616	0.89[EUR][1000 genomes]
rs1834199	1.00[EUR][1000 genomes]
rs2052641	1.00[EUR][1000 genomes]
rs2161935	0.94[EUR][1000 genomes]
rs2170461	0.89[EUR][1000 genomes]
rs2170462	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2459565	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2676178	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2676181	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2733231	0.89[EUR][1000 genomes]
rs2899599	0.94[EUR][1000 genomes]
rs35813867	0.83[EUR][1000 genomes]
rs4287503	1.00[EUR][1000 genomes]
rs4594195	0.89[EUR][1000 genomes]
rs4774869	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4774885	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs480701	1.00[EUR][1000 genomes]
rs6493888	1.00[EUR][1000 genomes]
rs7176472	0.94[EUR][1000 genomes]
rs74015901	0.94[EUR][1000 genomes]
rs8029710	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs966807	0.89[EUR][1000 genomes]

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	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv1041239	chr15:56888945-56959028	Weak transcription Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56902800-56945400	Weak transcription	Right Ventricle	heart
2	chr15:56905600-56923600	Weak transcription	Left Ventricle	heart
3	chr15:56908800-56923400	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr15:56910600-56945400	Weak transcription	HSMMtube	muscle
5	chr15:56912800-56921000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr15:56912800-56923400	Weak transcription	Adipose Nuclei	Adipose
7	chr15:56912800-56923400	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr15:56912800-56957000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr15:56913000-56923400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr15:56913200-56923200	Weak transcription	HSMM	muscle
11	chr15:56913200-56923600	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr15:56913200-56929600	Weak transcription	NHDF-Ad	bronchial
13	chr15:56913400-56923600	Weak transcription	Dnd41	blood
14	chr15:56913400-56955200	Weak transcription	Aorta	Aorta
15	chr15:56914000-56921000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr15:56914000-56929400	Weak transcription	Fetal Stomach	stomach
17	chr15:56914200-56921200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr15:56915200-56937400	Weak transcription	Liver	Liver
19	chr15:56915400-56923600	Weak transcription	Primary T cells from cord blood	blood
20	chr15:56915600-56918200	Weak transcription	Fetal Thymus	thymus
21	chr15:56915600-56929000	Weak transcription	Thymus	Thymus
22	chr15:56916600-56990800	Weak transcription	Pancreas	Pancrea
23	chr15:56916800-56949800	Weak transcription	Fetal Kidney	kidney
24	chr15:56917000-56918800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr15:56917200-56955200	Weak transcription	Psoas Muscle	Psoas

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