Basic Information
VIS ID
TVIS30002901
Fusion event
HIV-RAB27B 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
q21.2
Reference genome
GRCh37/hg19
Start
52458838/54791607 (Hg38)
End
52458838/54791607 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA18B
Target gene
RAB27B
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-30a-5p ; hsa-mir-1-3p ; hsa-mir-193a-3p
Nearest miRNA
hsa-mir-1-2/Upstream/1554417; hsa-mir-122/Downstream/687614;
Nearest TSS
ENST00000575820/Upstream/73747; ENST00000590604/Downstream/36592;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/432983, chr18-CpG: 30/Downstream/36766
Nearby gene
RAB27B(No orient, 36870)
Upstream sequence
agggagtcctgggaagggaagagtgtgatccctttaaatgatacggaagaggggaagggaggtgctgggtagaggagggcgtggtccctggctagggttc
Downstream sequence
cacctccacggacctaggtgaggacagacactcctgccttgacgcgcaaatattgcattttccaagaccactgggcctgcccatcctgggcctataaaaa
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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