Basic Information
VIS ID
TVIS30013144
Fusion event
HIV-CCDC58 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
chr3
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
122092454/122373607 (Hg38)
End
122092454/122373607 (Hg38)
Orient
+
Location type
Intronic
Target gene
CCDC58
miRNAs that regulate target gene
hsa-mir-24-3p ; hsa-mir-16-5p ; hsa-mir-629-3p ; hsa-mir-374a-3p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-2115-3p ; hsa-mir-944 ; hsa-mir-136-5p ; hsa-mir-361-5p ; hsa-mir-2681-5p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-16-1-3p ; hsa-mir-3163 ; hsa-mir-4282 ; hsa-mir-4668-5p
Nearest miRNA
hsa-let-7g/Upstream/1323892; hsa-mir-12124/Downstream/788187;
Nearest TSS
ENST00000440867/Upstream/585; ENST00000469967/Downstream/9620;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/143129, chr3-CpG: 41/Downstream/10397
Upstream sequence
aagcgatccaccggcctcagcctcccaaagtgctgggattacaggcaaaagccaccgcacccagccctgaagatattttaaatagttgcgtttaagtatt
Downstream sequence
ctatcctgttcaagcacaactcatttggccactttctcattaacaaacatttaggttgtttccaattATAAACCATTTAGCCCATTCAATCTAAGTCTGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate