Basic Information
VIS ID
TVIS30008220
Fusion event
HIV-TBC1D22A 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
chr22
Cytoband
q13.31
Reference genome
GRCh37/hg19
Start
47316562/46920666 (Hg38)
End
47316562/46920666 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
TBC1D22A
miRNAs that regulate target gene
hsa-mir-342-5p ; hsa-mir-484 ; hsa-mir-4633-5p ; hsa-mir-532-5p ; hsa-mir-499b-3p ; hsa-mir-499a-3p ; hsa-mir-8485
Nearest miRNA
hsa-let-7a-3/Upstream/806898; hsa-mir-12114/Downstream/1353698;
Nearest TSS
ENST00000624155/Upstream/4624; ENST00000434707/Downstream/424903;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/60138, chr22-CpG: 19/Downstream/107652
Upstream sequence
GGTAGATTCGCTGCTCCTCGAATCTGGGGACTGTGTCGCATGCGTGTGTCATGCTTTGCACAGAGAAGCTTCGTGGATTAGAGAAACTCTGTTGAATTGG
Downstream sequence
ATCCCTACAGAAAGTTTTTGTGTTTATAGAGCACTTTATTAGTATTTGTTTAAACACTGAAACaatatataatttttatttattttttGAAGTTAACATT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate