Variant report

Variant	rs28401568
Chromosome Location	chr15:40103928-40103929
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12438821	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1865754	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28565083	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3784392	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[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	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv832979	chr15:40041928-40218407	Genic enhancers Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv832983	chr15:40098766-40248839	Genic enhancers Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40094400-40109600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr15:40094400-40120400	Weak transcription	HSMMtube	muscle
3	chr15:40096200-40120400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr15:40096800-40111600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr15:40097200-40110000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr15:40098800-40112200	Weak transcription	NHDF-Ad	bronchial
7	chr15:40099400-40109600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr15:40099400-40109800	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr15:40099400-40110000	Weak transcription	Osteobl	bone
10	chr15:40099400-40110800	Weak transcription	Aorta	Aorta
11	chr15:40099400-40115000	Weak transcription	NHLF	lung
12	chr15:40099400-40116600	Weak transcription	HSMM	muscle
13	chr15:40100600-40107000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr15:40101400-40107200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr15:40101400-40109600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr15:40102000-40109800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr15:40102400-40112200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr15:40103000-40121400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr15:40103200-40109000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr15:40103200-40109600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr15:40103200-40109800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr15:40103400-40105400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr15:40103400-40109200	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr15:40103400-40109600	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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