Basic Information
VIS ID
TVIS30004242
Fusion event
HIV-TRAF2 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
chr9
Cytoband
q34.3
Reference genome
GRCh37/hg19
Start
139809146/136914694 (Hg38)
End
139809146/136914694 (Hg38)
Orient
+
Location type
Intronic
Target gene
TRAF2
miRNAs that regulate target gene
hsa-mir-502-5p ; hsa-mir-371a-5p ; hsa-mir-4519 ; hsa-mir-3120-3p ; hsa-mir-4279 ; hsa-mir-6851-3p ; hsa-mir-6081 ; hsa-mir-6886-3p ; hsa-mir-4722-5p ; hsa-mir-5008-5p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-4254 ; hsa-mir-3690 ; hsa-mir-5088-3p ; hsa-mir-4530 ; hsa-mir-4459 ; hsa-mir-4695-5p ; hsa-mir-6165 ; hsa-mir-892b ; hsa-mir-34a-5p
Nearest miRNA
hsa-let-7a-1/Upstream/27891; hsa-mir-3621/Downstream/254492;
Nearest TSS
ENST00000422679/Upstream/6558; ENST00000466107/Downstream/6431;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/4809, chr9-CpG: 307/Downstream/26270
Upstream sequence
TTGCATTTCAGATTCTTACCCAACTTCCATGTTGCTGTCTCCTTTCTACAGAAAGTCGTGGTTCCTGTTGACATTGCTATACATAAGAACGGTGTCAGTA
Downstream sequence
GCACTGAGTCTGATCCATGGCAAATTATGTGATGACGAAGTTCTCTTTCTAGTTCTCTTTGCTTTTAGAGTCTGTATTGAGTTGCTGTGTCATAAGTCAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate