Basic Information
VIS ID
TVIS30002186
Fusion event
HIV-CDC16 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
chr13
Cytoband
q34
Reference genome
GRCh37/hg19
Start
115030822/114265347 (Hg38)
End
115030822/114265347 (Hg38)
Orient
+
Location type
Intronic
Target gene
CDC16
miRNAs that regulate target gene
hsa-mir-93-5p
Nearest miRNA
hsa-mir-1267/Upstream/20786; hsa-mir-4502/Downstream/8481;
Nearest TSS
ENST00000623511/Upstream/1135; ENST00000492270/Downstream/16237;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/29948, chr13-CpG: 135/Downstream/15932
Upstream sequence
AATCGTTATTCTTATTGGTATTGTACTCCATTTTTTAGGTTGTCATATGTCTCTGTTTATGTTTCTCATATTCTCGTCTGAGGTTCCAAGTTCATCTTTC
Downstream sequence
TAACCATTCGTGCTGCATTAAAAACAAGAAACTCCATTTATTTTATTAGAACAATGCTGTGGGGGAGTTAGTGACTCACCAAGGGTGCGTTCAGTTTAAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate