Basic Information
VIS ID
TVIS30011962
Fusion event
HIV-SPTBN5 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
chr15
Cytoband
q15.1
Reference genome
GRCh37/hg19
Start
42153469/41861271 (Hg38)
End
42153469/41861271 (Hg38)
Orient
+
Location type
Intronic
Target gene
SPTBN5
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-let-7f-5p ; hsa-mir-1233-3p ; hsa-mir-127-5p ; hsa-mir-4533 ; hsa-mir-4681 ; hsa-mir-4691-3p ; hsa-mir-4747-5p ; hsa-mir-5196-5p ; hsa-mir-7843-3p
Nearest miRNA
hsa-mir-1233-1/Upstream/169593; hsa-mir-10393/Downstream/5224;
Nearest TSS
ENST00000557528/Upstream/10699; ENST00000309874/Downstream/31522;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/32847, chr15-CpG: 79/Downstream/20615
Upstream sequence
TGGGTCAGGCCCACACAGGCACTCTAGAAGCTCCTTGGTGTTCGCGGTGGGGCCTGCCCACAGCTGCATGGGAACTGCTCTAGATGACGGGTAAGTAACT
Downstream sequence
GCCCAGTGACGGATGTGGCCCAGGGTGGGGAGATGGCCCCGAAGGGGAGGATCCCTGGCCTAGGGAGCTCAGGCAGCACTGGCTGGTTTGACCCCTAATG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate