Basic Information
VIS ID
TVIS30003343
Fusion event
HIV-PCMTD2 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
chr20
Cytoband
q13.33
Reference genome
GRCh37/hg19
Start
62892153/64260800 (Hg38)
End
62892153/64260800 (Hg38)
Orient
+
Location type
Intronic
Target gene
PCMTD2
miRNAs that regulate target gene
hsa-mir-142-3p ; hsa-mir-23b-3p ; hsa-mir-30a-5p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30e-5p ; hsa-mir-365a-3p ; hsa-mir-365b-3p ; hsa-mir-4457 ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-5695 ; hsa-mir-519d-5p ; hsa-mir-6506-3p ; hsa-mir-935 ; hsa-mir-5094 ; hsa-mir-6505-5p ; hsa-mir-9-5p ; hsa-mir-548as-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac
Nearest miRNA
hsa-mir-1-1/Upstream/183790;
Nearest TSS
ENST00000382410/Upstream/715; ENST00000609818/Downstream/4712;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/4690, chr20-CpG: 59/Downstream/8995
Upstream sequence
TGTTGGtttttttttttttttttttttgacagttgtgccccatcgtctaggctggagtgccgtgacacgagcaaggcccactgtagccttgacctcctgg
Downstream sequence
gatccagcaaatcctcctgagtacctagggccacaggcacgcaccaccacccctggctgatgtttaaatgatttttagagacggggtctcgccatgtttc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate