Basic Information
VIS ID
TVIS30007985
Fusion event
HIV-TGIF2 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
chr20
Cytoband
q11.23
Reference genome
GRCh37/hg19
Start
35213201/36584798 (Hg38)
End
35213201/36584798 (Hg38)
Orient
+
Location type
Intronic
Target gene
TGIF2
miRNAs that regulate target gene
hsa-mir-148a-3p ; hsa-mir-30c-5p ; hsa-mir-181a-5p ; hsa-mir-101-3p ; hsa-mir-149-3p ; hsa-mir-1260b ; hsa-mir-29b-3p ; hsa-mir-34a-5p ; hsa-mir-29c-3p ; hsa-mir-3120-5p ; hsa-mir-6894-3p ; hsa-mir-6820-5p ; hsa-mir-4763-5p ; hsa-mir-3166 ; hsa-mir-4446-5p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-670-5p ; hsa-mir-6747-3p ; hsa-mir-6752-3p ; hsa-mir-7641 ; hsa-mir-548t-3p ; hsa-mir-548ap-3p ; hsa-mir-548aa ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-148a-5p ; hsa-mir-34c-5p ; hsa-mir-34a-3p ; hsa-mir-541-3p ; hsa-mir-1224-3p ; hsa-mir-6758-5p ; hsa-mir-6856-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/1130701; hsa-mir-1-1/Downstream/1931765;
Nearest TSS
ENST00000382410/Upstream/5873; ENST00000491113/Downstream/20936;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/9711, chr20-CpG: 97/Downstream/20628
Upstream sequence
accaggctgagctaatttttgtagttttagtaaagacagggtttcaccattttggccaggctggtctcgaactcccgacctcaggtggtctcacttcagc
Downstream sequence
ctcccaaagtgctgggattacaggcgtgagccactgctcccggccTCCTGTATTTAATTTTTTAAATTTCATTTTCCATTAAGGACATTTAAGAATATCT
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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