Basic Information
VIS ID
TVIS30010870
Fusion event
HIV-IRF2 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
chr4
Cytoband
q35.1
Reference genome
GRCh37/hg19
Start
185308818/184387664 (Hg38)
End
185308818/184387664 (Hg38)
Orient
+
Location type
Intronic
Target gene
IRF2
miRNAs that regulate target gene
hsa-mir-20a-5p ; hsa-mir-335-5p ; hsa-mir-30d-5p ; hsa-mir-5187-5p ; hsa-mir-6728-5p ; hsa-mir-5191 ; hsa-mir-1276 ; hsa-mir-3686 ; hsa-mir-3658 ; hsa-mir-298 ; hsa-mir-3607-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-4662a-3p ; hsa-mir-302e ; hsa-mir-302d-3p ; hsa-mir-302c-3p ; hsa-mir-302b-3p ; hsa-mir-372-3p ; hsa-mir-302a-3p ; hsa-mir-373-3p ; hsa-mir-520a-3p ; hsa-mir-520e ; hsa-mir-520d-3p ; hsa-mir-520c-3p ; hsa-mir-520b ; hsa-mir-520f-3p ; hsa-mir-18a-5p ; hsa-mir-4735-3p ; hsa-mir-18b-5p
Nearest miRNA
hsa-mir-12113/Upstream/2218286; hsa-mir-3945/Downstream/463349;
Nearest TSS
ENST00000502981/Upstream/5358; ENST00000509538/Downstream/30926;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/218828, chr4-CpG: 20/Downstream/68778
Nearby gene
IRF2(No orient, 58)
Nearest cancer related gene
IRF2(OG, No orient, 0)
Upstream sequence
GAAGTCAACTGAAGCCTCACAGTAAGAACCTCCACGGTTTCTTGTGGTCAACAAGGGAAAACATTTTGGTCCCCAAAAAGAAACAATCCTTTGTCAGTCC
Downstream sequence
TATTCCGTGATTATGCTCTTTTAAAGCAGACACAGACAAAGCCAGGAGTGATGCCCCTTAAAAATTTAACTATATATCATATTCATTTATTATCAATCCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate