Basic Information
VIS ID
TVIS30008046
Fusion event
HIV-USP25 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
chr21
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
17178510/15806191 (Hg38)
End
17178510/15806191 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA21A
Target gene
USP25
miRNAs that regulate target gene
hsa-mir-128-3p ; hsa-mir-101-3p ; hsa-mir-27a-3p ; hsa-mir-454-5p ; hsa-mir-200c-3p ; hsa-mir-297 ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-410-3p ; hsa-mir-4666a-5p ; hsa-mir-27b-3p ; hsa-mir-513a-5p ; hsa-mir-6832-5p ; hsa-mir-16-1-3p ; hsa-mir-3681-3p ; hsa-mir-216a-3p ; hsa-mir-411-5p ; hsa-mir-3123 ; hsa-mir-3925-5p ; hsa-mir-144-3p
Nearest miRNA
hsa-mir-10396a/Upstream/2081917; hsa-let-7c/Downstream/732898;
Nearest TSS
ENST00000624081/Upstream/6657; ENST00000453553/Downstream/18819;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/75707, chr21-CpG: 138/Downstream/1706297
Upstream sequence
TATGTTGTTGCATTTTTAAAAAAAATTCTAACAATGCTCCAGTGCCTTTTAGGCTTAGTATCTACTCAGCTTTGTTTCTTACTCGCTCTGTCATGGTAAC
Downstream sequence
ACTAACACAAATCAAAAGAAAGAGAAATAATTTTACAGTTGATTCCAAACCATCATTTTCGGGCATTCAGCATTCCTTCTGGTTCTAAATGTGTTTTACT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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