Basic Information
VIS ID
TVIS30007312
Fusion event
HIV-TRAPPC8 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
q12.1
Reference genome
GRCh37/hg19
Start
29444300/31864337 (Hg38)
End
29444300/31864337 (Hg38)
Orient
+
Location type
Intronic
Target gene
TRAPPC8
miRNAs that regulate target gene
hsa-mir-607 ; hsa-mir-4668-5p ; hsa-mir-3148 ; hsa-mir-548o-3p ; hsa-mir-1323
Nearest miRNA
hsa-mir-1-2/Upstream/1565377; hsa-mir-122/Downstream/3727400;
Nearest TSS
ENST00000575820/Upstream/11465; ENST00000580420/Downstream/6686;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/140046, chr18-CpG: 95/Downstream/78101
Upstream sequence
GTGAAGATAGGAAGAAGGTGAAATACTGCTTTTTATTCAGATGCTTCTACATTGCTTAAGTTTTTTTATAAGCATTCATTCACAAATTATTTTTTATAAC
Downstream sequence
TTATGAAAAAGAGTCACTCATTTTTAAAATCAGAGTGGATTTTTTAGAAGTATTTTTCCCAATTTCCATTAATATTTTGAGGGTTATATTTTATAGCCTG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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