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TVIS30004551
Basic Information
VIS ID
TVIS30004551
Fusion event
HIV-IL21R integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr16
Cytoband
p12.1
Reference genome
GRCh37/hg19
Start
27430975/27419654 (Hg38)
End
27430975/27419654 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA16E
Target gene
IL21R
miRNAs that regulate target gene
hsa-mir-335-5p
;
hsa-mir-148b-3p
;
hsa-mir-7-5p
;
hsa-mir-30a-5p
;
hsa-mir-30c-5p
;
hsa-mir-30d-5p
;
hsa-mir-30b-5p
;
hsa-mir-30e-5p
;
hsa-mir-448
;
hsa-mir-3607-3p
;
hsa-mir-4643
;
hsa-mir-4789-3p
;
hsa-mir-5580-3p
;
hsa-mir-8485
;
hsa-mir-7106-5p
;
hsa-mir-4748
;
hsa-mir-5572
;
hsa-mir-4260
;
hsa-mir-450a-2-3p
;
hsa-mir-6763-5p
;
hsa-mir-6857-5p
;
hsa-mir-3150a-3p
;
hsa-mir-6810-5p
;
hsa-mir-2110
;
hsa-mir-128-2-5p
;
hsa-mir-128-1-5p
;
hsa-mir-6825-5p
;
hsa-mir-939-5p
;
hsa-mir-1343-5p
;
hsa-mir-3175
;
hsa-mir-6781-5p
;
hsa-mir-766-5p
;
hsa-mir-483-5p
;
hsa-mir-6782-3p
;
hsa-mir-8064
;
hsa-mir-502-3p
;
hsa-mir-501-3p
Nearest miRNA
hsa-mir-1225/Upstream/1394344; hsa-mir-11401/Downstream/971328;
Nearest TSS
ENST00000527434/Upstream/17480;
ENST00000561953/Downstream/7590;
Nearest CpG islands
None/Target,
chr16-CpG: 29/Upstream/105280
,
chr16-CpG: 56/Downstream/130034
Upstream sequence
atagctggaattacaagcacacaccaccgtgcctggctaatttttgtatttttagtagagatggggtttcaccatgttggccaggctggtttccaactcc
Downstream sequence
tgacctcaagtgatctgcctgcctcagcctcccaaagtgctgggattacaggcgtaagccactgtgcccctccaacatttttttttaagtaagtacaagg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Sample Information
×
Sample name
Bcl-2 transduced CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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