Variant report

Variant	rs28566661
Chromosome Location	chr15:79279462-79279463
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	chr15:79278181..79281070-chr15:79299396..79302014,2	K562	blood:
2	chr15:79274407..79277285-chr15:79277913..79280154,2	K562	blood:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs2230518	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28774671	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3743196	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3743197	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3743198	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3743200	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3743201	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3803544	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3825928	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56057581	0.83[EUR][1000 genomes]
rs56060107	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56378114	0.83[EUR][1000 genomes]
rs6495356	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7167720	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7167721	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7167730	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7168964	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7173329	0.89[EUR][1000 genomes]
rs7174399	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7175590	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7175835	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8026309	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs8026710	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8033417	0.92[EUR][1000 genomes]
rs8036107	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][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	esv33573	chr15:79053484-79293881	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv904433	chr15:79243571-79310288	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:79244000-79288000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr15:79261200-79280400	Weak transcription	Esophagus	oesophagus
3	chr15:79272200-79280000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr15:79272200-79280000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr15:79272200-79280200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr15:79272200-79280200	Weak transcription	Pancreas	Pancrea
7	chr15:79272200-79280400	Weak transcription	Brain Substantia Nigra	brain
8	chr15:79272200-79280600	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr15:79272200-79284400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr15:79272400-79279600	Weak transcription	Fetal Intestine Large	intestine
11	chr15:79272400-79280200	Weak transcription	Brain Hippocampus Middle	brain
12	chr15:79272400-79286400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr15:79272600-79280000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr15:79275200-79280000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr15:79276000-79279600	Weak transcription	Fetal Muscle Leg	muscle
16	chr15:79276200-79280000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr15:79276200-79280200	Weak transcription	Placenta	Placenta
18	chr15:79276200-79280400	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr15:79276200-79280600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr15:79276200-79280600	Weak transcription	Lung	lung
21	chr15:79276400-79279600	Weak transcription	GM12878-XiMat	blood
22	chr15:79276400-79280000	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr15:79276400-79280000	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr15:79276400-79280200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr15:79276400-79280200	Weak transcription	Adipose Nuclei	Adipose
26	chr15:79276400-79280200	Weak transcription	HSMM	muscle
27	chr15:79276400-79280400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr15:79276400-79288600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr15:79276400-79309200	Weak transcription	Right Atrium	heart
30	chr15:79276600-79280200	Weak transcription	HSMMtube	muscle
31	chr15:79277200-79280200	Weak transcription	Brain Cingulate Gyrus	brain
32	chr15:79277400-79280400	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr15:79277400-79282000	Weak transcription	Brain Angular Gyrus	brain
34	chr15:79277600-79284000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr15:79278400-79290400	Enhancers	Fetal Intestine Small	intestine
36	chr15:79278600-79280200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr15:79278800-79279800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr15:79278800-79279800	Weak transcription	HepG2	liver
39	chr15:79278800-79280000	Weak transcription	NHEK	skin
40	chr15:79279000-79280600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr15:79279400-79287000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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