Basic Information
VIS ID
TVIS30013311
Fusion event
HIV-SERINC5 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
chr5
Cytoband
q14.1
Reference genome
GRCh37/hg19
Start
79510053/80214234 (Hg38)
End
79510053/80214234 (Hg38)
Orient
+
Location type
Intronic
Target gene
SERINC5
miRNAs that regulate target gene
hsa-mir-145-5p ; hsa-mir-16-5p ; hsa-mir-3926 ; hsa-mir-4753-5p ; hsa-mir-6796-3p ; hsa-mir-4484 ; hsa-mir-6768-3p ; hsa-mir-548an ; hsa-mir-9-5p
Nearest miRNA
hsa-mir-10397/Upstream/7335571; hsa-mir-103a-1/Downstream/2625921;
Nearest TSS
ENST00000502646/Upstream/47054; ENST00000511881/Downstream/40964;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/178569, chr5-CpG: 103/Downstream/41316
Upstream sequence
atttatggccatggaaagacgtccacactgtataaactgaaaatagttaatattaatagtgtagagtatgatagcattttgggtaaaaatataacaagac
Downstream sequence
atagatcagcactaacaacaacaaaaaacaaactagaaggatatatcagtacatcaacagtagtaaacagagttgtagaattatgagtgactatgctctt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate