Basic Information
VIS ID
TVIS30008076
Fusion event
HIV-TTC3 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
chr21
Cytoband
q22.13
Reference genome
GRCh37/hg19
Start
38466082/37093782 (Hg38)
End
38466082/37093782 (Hg38)
Orient
-
Location type
Intronic
Target gene
TTC3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-877-3p ; hsa-mir-130b-5p ; hsa-mir-27a-3p ; hsa-mir-27b-3p
Nearest miRNA
hsa-let-7c/Upstream/1372974; hsa-mir-3197/Downstream/2353228;
Nearest TSS
ENST00000624081/Upstream/2388; ENST00000414818/Downstream/13956;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/19585, chr21-CpG: 62/Downstream/126904
Upstream sequence
TGTTATGACAGAGCATTTATTGTAAATACAATTACAACTAATATAATAATAAATAAAGGTTTTTTATTGCTAGAAATAAAAGGTGAGATTAGATTCATAG
Downstream sequence
CAAGCAATAACTGATGTTTTCTGCAACATTTTATCAGTTTATTTTTTTACTGAGTTATTTAATAGACATAAAAGGTTACAAGAAACATGTGCTATTtaga
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate