Basic Information
VIS ID
TVIS30006929
Fusion event
HIV-SDR42E1 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
chr16
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
82039008/82005403 (Hg38)
End
82039008/82005403 (Hg38)
Orient
-
Location type
Intronic
Target gene
SDR42E1
miRNAs that regulate target gene
hsa-mir-202-5p ; hsa-mir-4650-3p ; hsa-mir-202-3p ; hsa-mir-98-5p ; hsa-mir-4500 ; hsa-mir-4458 ; hsa-let-7i-5p ; hsa-let-7g-5p ; hsa-let-7f-5p ; hsa-let-7e-5p ; hsa-let-7d-5p ; hsa-let-7c-5p ; hsa-let-7b-5p ; hsa-mir-6831-5p ; hsa-let-7a-5p ; hsa-mir-3927-3p ; hsa-mir-4484 ; hsa-mir-6768-3p ; hsa-mir-548an
Nearest miRNA
hsa-mir-1225/Upstream/393995; hsa-mir-11401/Downstream/683528;
Nearest TSS
ENST00000527434/Upstream/17455; ENST00000563491/Downstream/6062;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/225446, chr16-CpG: 35/Downstream/5878
Upstream sequence
GCAAAAACTTGTATAACTGACCTGATCGGGGGGGTCAGAAGAGAAAGATAAGAAAAATTAATAACTTAACAAGATAAACAGCAAGGAAAAAGCTTATCCA
Downstream sequence
CCAGGCCAGTAAAGCCTTCACAGGATGGTAGCCATCTGCTGCACTGCTGGGAGCCGCCTCCTCCCTTCCTGATCCCCAACATTGATAAGCACAGAAAAAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate