Basic Information
VIS ID
TVIS30013767
Fusion event
HIV-C9orf78 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
chr9
Cytoband
q34.11
Reference genome
GRCh37/hg19
Start
132593684/129831405 (Hg38)
End
132593684/129831405 (Hg38)
Orient
-
Location type
Intronic
Target gene
C9orf78
miRNAs that regulate target gene
hsa-mir-373-3p ; hsa-mir-1296-5p ; hsa-mir-615-3p ; hsa-mir-20a-5p ; hsa-mir-6831-3p ; hsa-mir-338-3p ; hsa-mir-761 ; hsa-mir-4530 ; hsa-mir-3619-5p ; hsa-mir-214-3p ; hsa-mir-5586-5p ; hsa-mir-4759 ; hsa-mir-3154 ; hsa-mir-562 ; hsa-mir-1178-3p ; hsa-mir-513b-5p ; hsa-mir-466 ; hsa-mir-4672 ; hsa-mir-3941 ; hsa-mir-6124 ; hsa-mir-4313 ; hsa-mir-3148 ; hsa-mir-4457 ; hsa-mir-125b-2-3p ; hsa-mir-4643 ; hsa-mir-3688-3p ; hsa-mir-4789-3p ; hsa-mir-6507-5p ; hsa-mir-4694-3p
Nearest miRNA
hsa-let-7a-1/Upstream/1438691; hsa-mir-12126/Downstream/38200;
Nearest TSS
ENST00000422679/Upstream/720; ENST00000491053/Downstream/2112;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/7114, chr9-CpG: 108/Downstream/3535
Upstream sequence
agatgatagtttgccaatagctttgttggcaaaataaaaagtgggcaagcccatgttttatccctgcaatgttttggggaaatattactagtcatgaaac
Downstream sequence
cACCTTTGAAAACAAGtttttattttttatattttggagacggagtttcactcttgttgcccaggctggagtgcaatggcgagatcttggctcgccgcaa
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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