Variant report

Variant	rs28709377
Chromosome Location	chr15:58515870-58515871
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs11635865	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2414550	1.00[ASN][1000 genomes]
rs4774291	1.00[ASN][1000 genomes]
rs4775024	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047246	chr15:58375607-58707158	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv833024	chr15:58447459-58621963	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1050473	chr15:58479888-58562270	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv904264	chr15:58505122-58588510	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58502800-58516200	Weak transcription	NHEK	skin
2	chr15:58505800-58516200	Weak transcription	Right Atrium	heart
3	chr15:58506600-58520200	Weak transcription	Liver	Liver
4	chr15:58512600-58516200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr15:58513600-58517000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr15:58513600-58517200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr15:58514000-58520400	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr15:58514800-58516400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr15:58514800-58516600	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr15:58514800-58519200	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr15:58515000-58516200	Weak transcription	Osteobl	bone
12	chr15:58515000-58517000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr15:58515200-58516600	Enhancers	Fetal Lung	lung
14	chr15:58515200-58516800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr15:58515200-58516800	Enhancers	HMEC	breast
16	chr15:58515200-58517000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr15:58515200-58517000	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr15:58515400-58516400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr15:58515400-58516600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr15:58515400-58516600	Enhancers	Spleen	Spleen
21	chr15:58515400-58516800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr15:58515400-58520800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr15:58515600-58516000	Weak transcription	NHDF-Ad	bronchial
24	chr15:58515600-58516000	Weak transcription	NHLF	lung
25	chr15:58515600-58516800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr15:58515800-58516800	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr15:58515800-58517000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr15:58515800-58517000	Enhancers	Brain Hippocampus Middle	brain
29	chr15:58515800-58517000	Enhancers	Brain Substantia Nigra	brain
30	chr15:58515800-58517000	Enhancers	Fetal Muscle Leg	muscle

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