Basic Information
VIS ID
TVIS30004685
Fusion event
HIV-SETBP1 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
chr18
Cytoband
q12.3
Reference genome
GRCh37/hg19
Start
42404684/44824719 (Hg38)
End
42404684/44824719 (Hg38)
Orient
+
Location type
Intronic
Target gene
SETBP1
miRNAs that regulate target gene
hsa-mir-432-5p ; hsa-mir-218-5p ; hsa-mir-6819-5p ; hsa-mir-6812-5p ; hsa-mir-6737-5p ; hsa-mir-4766-3p ; hsa-mir-6742-5p ; hsa-mir-6769b-5p ; hsa-mir-6769a-5p ; hsa-mir-92a-2-5p ; hsa-mir-654-5p ; hsa-mir-541-3p ; hsa-mir-6747-5p ; hsa-mir-608 ; hsa-mir-4664-5p ; hsa-mir-4651 ; hsa-mir-6875-5p ; hsa-mir-342-5p ; hsa-mir-3126-5p ; hsa-mir-3908 ; hsa-mir-4735-5p ; hsa-mir-3942-5p ; hsa-mir-4703-5p ; hsa-mir-6873-5p ; hsa-mir-32-3p ; hsa-mir-4714-3p ; hsa-mir-520f-5p ; hsa-mir-4521 ; hsa-mir-3065-5p ; hsa-mir-4668-3p ; hsa-mir-651-3p ; hsa-mir-6873-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-7151-5p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-4264 ; hsa-mir-4797-3p ; hsa-mir-4302 ; hsa-mir-6733-3p ; hsa-mir-5571-5p ; hsa-mir-4282
Nearest miRNA
hsa-mir-1-2/Upstream/5147940; hsa-mir-122/Downstream/145363;
Nearest TSS
ENST00000575820/Upstream/123381; ENST00000323329/Downstream/356395;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/79718, chr18-CpG: 19/Downstream/239021
Nearest cancer related gene
SETBP1(OG, No orient, 0)
Upstream sequence
TTAAAAGACCCATTAATATTCAACATTAGCAGAATAATTTTCTAAATGACAAGTTACAACCTTTTGGCTGTCTCCTCTTTTTCTTTTCCCCAGGGAATTG
Downstream sequence
CCCTTTTAATGCAATTGAAAAaaagaaggggatgggaagagaaggaaaatggagggcagaagaaagagagcaataggaagggaaggaaGTGGTGATTGCC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate