Basic Information
VIS ID
TVIS30007309
Fusion event
HIV-TAF4B 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
q11.2
Reference genome
GRCh37/hg19
Start
23869799/26289835 (Hg38)
End
23869799/26289835 (Hg38)
Orient
-
Location type
Intronic
Target gene
TAF4B
miRNAs that regulate target gene
hsa-mir-197-3p ; hsa-mir-26b-5p ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p
Nearest miRNA
hsa-mir-1-2/Upstream/1968089; hsa-mir-122/Downstream/301632;
Nearest TSS
ENST00000575820/Upstream/62952; ENST00000578367/Downstream/133160;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/62706, chr18-CpG: 348/Downstream/256981
Upstream sequence
AGTACTATGGTTTTATTTGGTGCTTTCTTTGAAAGAACATTAATGAATTCTCTTACATTATCACTCATTTTGTTTTTCTCAGCAGATGTTCAGGAGTGTA
Downstream sequence
CCTCCCATATTTTTGTTAGACTAGACATATACATTGTTCCAGGTGTTAGAGTCATTAAGATGGGAAGTGATGGGGATTGAAGGTTGTTAAGTCCCAATAC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate