Variant report

Variant	rs12909179
Chromosome Location	chr15:79047632-79047633
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:79047462..79049976-chr15:79054585..79057196,2	K562	blood:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11853608	0.81[AFR][1000 genomes]
rs12286	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12907372	0.91[AFR][1000 genomes]
rs2869566	0.82[AFR][1000 genomes]
rs4887087	0.82[AFR][1000 genomes]
rs4887090	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs55834964	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56195905	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs56354501	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs7182642	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8031513	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs899984	0.87[AMR][1000 genomes];0.89[EUR][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	nsv917303	chr15:78491050-79205255	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	122 gene(s)	inside rSNPs	diseases
2	nsv974606	chr15:78996783-79048337	Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv904431	chr15:79006442-79155088	Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:79040600-79060000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:79042800-79055400	Enhancers	Right Ventricle	heart
3	chr15:79043400-79048200	Weak transcription	NH-A	brain
4	chr15:79043400-79048600	Weak transcription	Brain Angular Gyrus	brain
5	chr15:79043400-79049200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr15:79043400-79049200	Weak transcription	NHLF	lung
7	chr15:79043400-79049400	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr15:79043400-79049600	Weak transcription	Pancreas	Pancrea
9	chr15:79043600-79048200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr15:79043600-79048600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr15:79043600-79049600	Weak transcription	Colonic Mucosa	Colon
12	chr15:79043600-79049800	Weak transcription	Fetal Brain Female	brain
13	chr15:79043600-79077800	Weak transcription	Brain Germinal Matrix	brain
14	chr15:79043800-79048000	Weak transcription	Osteobl	bone
15	chr15:79043800-79048600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr15:79043800-79049200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr15:79043800-79049200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr15:79043800-79049200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr15:79043800-79049600	Weak transcription	Lung	lung
20	chr15:79043800-79052000	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr15:79043800-79053400	Weak transcription	Duodenum Mucosa	Duodenum
22	chr15:79044000-79048000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr15:79044000-79048200	Weak transcription	Primary B cells from cord blood	blood
24	chr15:79044000-79048200	Weak transcription	HUVEC	blood vessel
25	chr15:79044000-79048400	Weak transcription	Brain Hippocampus Middle	brain
26	chr15:79044000-79049200	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr15:79044000-79049200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr15:79044000-79049200	Weak transcription	Brain Cingulate Gyrus	brain
29	chr15:79044000-79049600	Weak transcription	Stomach Mucosa	stomach
30	chr15:79044000-79050000	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr15:79044000-79052600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr15:79044200-79048200	Weak transcription	Primary B cells from peripheral blood	blood
33	chr15:79044200-79049200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr15:79044200-79049200	Weak transcription	Fetal Thymus	thymus
35	chr15:79044200-79059000	Enhancers	Fetal Muscle Trunk	muscle
36	chr15:79044400-79049400	Weak transcription	Primary T cells fromperipheralblood	blood
37	chr15:79045000-79055800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr15:79045000-79059000	Enhancers	Fetal Muscle Leg	muscle
39	chr15:79045200-79047800	Enhancers	Adipose Nuclei	Adipose
40	chr15:79045200-79049200	Enhancers	Skeletal Muscle Male	skeletal muscle
41	chr15:79045600-79049400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr15:79046000-79049200	Enhancers	HSMM	muscle
43	chr15:79046200-79049200	Weak transcription	Spleen	Spleen
44	chr15:79046200-79054600	Enhancers	Fetal Heart	heart
45	chr15:79046400-79063200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr15:79046600-79049400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr15:79046800-79048600	Enhancers	Muscle Satellite Cultured Cells	--
48	chr15:79046800-79049200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr15:79046800-79050200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr15:79047000-79048200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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