Basic Information
VIS ID
TVIS30009741
Fusion event
HIV-C9orf85 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
q21.13
Reference genome
GRCh37/hg19
Start
74555456/71940540 (Hg38)
End
74555456/71940540 (Hg38)
Orient
+
Location type
Intronic
Target gene
C9orf85
miRNAs that regulate target gene
hsa-mir-124-3p
Nearest miRNA
hsa-mir-101-2/Upstream/1130456; hsa-let-7a-1/Downstream/12029208;
Nearest TSS
ENST00000422679/Upstream/28738; ENST00000477618/Downstream/120065;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/28777, chr9-CpG: 71/Downstream/208785
Upstream sequence
aacaaacaaacaaaaaacccacgatggcaagtaaacacatcaaaagatgttcaacattattagttattagagaaatgtaaattgaaatcgtaatgaaata
Downstream sequence
atactacatacctatttgaatggctaaagtaagaaataaaatttcaagtgcaggaaataatgtagaaaaactggatcttcatatatggctggtatgaatg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate