Basic Information
VIS ID
TVIS30001479
Fusion event
HIV-CDC42 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
chr1
Cytoband
p36.12
Reference genome
GRCh37/hg19
Start
22406154/22079661 (Hg38)
End
22406154/22079661 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
CDC42
miRNAs that regulate target gene
hsa-mir-133a-3p ; hsa-mir-224-5p ; hsa-mir-185-5p ; hsa-mir-137 ; hsa-mir-216a-5p ; hsa-mir-330-3p ; hsa-mir-608 ; hsa-mir-29b-3p ; hsa-mir-29c-3p ; hsa-mir-29a-3p ; hsa-mir-195-5p ; hsa-mir-375 ; hsa-mir-1-3p ; hsa-mir-93-3p ; hsa-mir-484 ; hsa-mir-106b-5p ; hsa-mir-133b ; hsa-mir-204-5p ; hsa-mir-20a-3p ; hsa-mir-1207-3p ; hsa-mir-3914 ; hsa-mir-3591-3p ; hsa-mir-21-3p ; hsa-mir-107 ; hsa-mir-30c-5p
Nearest miRNA
hsa-mir-12136/Upstream/1091229; hsa-mir-101-1/Downstream/186578;
Nearest TSS
ENST00000473358/Upstream/26364; ENST00000606754/Downstream/20952;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/26125, chr1-CpG: 35/Downstream/40366
Upstream sequence
TGTCTCAAAAATAAGGAAAGTTTTTTTTTTGAAGGGGGGAGAATTTGAAGGTATTATTAAACACTAAAATCATATTGATATTTTGAATTGGCTCATTTGG
Downstream sequence
AGACAAGATAAATGGAAGACGTTTTGAGGTTCAGTGGACTTACAGGGGACATTTAGAGGTACATGAATCTTGTTTCAGAGTGAGGACAGCTATCAGAATT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate