Variant report

Variant	rs2823517
Chromosome Location	chr21:17262471-17262472
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-USP25-1	chr21:17259153-17263003	XLOC_013866
2	lnc-USP25-1	chr21:17256944-17267308	NONHSAT081216

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1022457	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2823502	0.91[ASN][1000 genomes]
rs2823503	0.91[ASN][1000 genomes]
rs2823504	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2823505	0.82[AFR][1000 genomes]
rs2823506	0.82[ASN][1000 genomes]
rs2823507	0.89[ASN][1000 genomes]
rs2823510	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2823511	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2823513	0.92[EUR][1000 genomes]
rs2823518	0.89[EUR][1000 genomes]
rs28469763	0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs392203	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7278727	0.82[AFR][1000 genomes]
rs8127570	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8127734	0.97[ASN][1000 genomes]
rs8128766	0.81[AFR][1000 genomes]
rs9977069	0.81[AFR][1000 genomes]
rs9980260	0.90[ASN][1000 genomes]
rs9983385	0.83[AFR][1000 genomes]
rs9983858	0.83[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834050	chr21:17146090-17348951	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 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	chr21:17223600-17264400	Weak transcription	NHEK	skin
2	chr21:17245400-17270400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr21:17246400-17263400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr21:17252200-17264600	Weak transcription	Hela-S3	cervix
5	chr21:17253000-17263400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr21:17253000-17268200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr21:17253200-17263400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr21:17253200-17264600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr21:17253200-17268000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr21:17253200-17268000	Weak transcription	Left Ventricle	heart
11	chr21:17253200-17269000	Weak transcription	Psoas Muscle	Psoas
12	chr21:17253400-17267800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr21:17253400-17269400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr21:17253600-17267200	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr21:17254400-17262600	Weak transcription	Placenta	Placenta
16	chr21:17255400-17267200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr21:17255400-17267400	Weak transcription	Rectal Smooth Muscle	rectum
18	chr21:17255400-17269600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr21:17255600-17264400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr21:17255600-17267200	Weak transcription	Fetal Lung	lung
21	chr21:17255800-17268000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr21:17255800-17268000	Weak transcription	Ovary	ovary
23	chr21:17256400-17267200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr21:17256600-17267200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr21:17256600-17267400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr21:17256600-17270400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr21:17256800-17268400	Weak transcription	A549	lung
28	chr21:17257000-17267800	Weak transcription	Adipose Nuclei	Adipose
29	chr21:17257400-17267600	Weak transcription	HSMMtube	muscle
30	chr21:17261400-17271800	Weak transcription	HSMM	muscle

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