Basic Information
VIS ID
TVIS30008075
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
38463254/37090954 (Hg38)
End
38463254/37090954 (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/1370146; hsa-mir-3197/Downstream/2356056;
Nearest TSS
ENST00000624081/Upstream/5164; ENST00000491952/Downstream/373;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/16757, chr21-CpG: 62/Downstream/129732
Upstream sequence
GACCACGTAAAATATGTAGTTCCTTTGGAGAACTTTAATCTATAAATTTAACCTTGGGGTAAGGATGGAAGTCTTTGTGTAGATGAGATCTGAGAACCCT
Downstream sequence
CATCCACCTTGTTATATTGCACTTGCCTGCTACCCCAGGCAGTCTGGCCAGGTTGTAGACCTCAAATTGCAGGTCTGTAGTAATTGCAGAAGCATCTTGA
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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