Basic Information
VIS ID
TVIS30008926
Fusion event
HIV-FBXW11 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
q35.1
Reference genome
GRCh37/hg19
Start
171371862/171944858 (Hg38)
End
171371862/171944858 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5G
Target gene
FBXW11
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-450a-5p ; hsa-mir-16-5p ; hsa-mir-192-3p ; hsa-mir-6892-5p ; hsa-mir-6878-5p ; hsa-mir-504-3p ; hsa-mir-5703 ; hsa-mir-4516 ; hsa-mir-4434 ; hsa-mir-1909-5p ; hsa-mir-6770-5p ; hsa-mir-6760-5p ; hsa-mir-4475 ; hsa-mir-4433b-3p
Nearest miRNA
hsa-mir-10397/Upstream/558098; hsa-mir-10523/Downstream/717307;
Nearest TSS
ENST00000502646/Upstream/35999; ENST00000398186/Downstream/32898;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/314522, chr5-CpG: 97/Downstream/61142
Upstream sequence
ACTTTCAAATCAAAATCAGTTTTTTTCAAGATAATCTTTCAACTCACAGGAATACTTACATTCACAGAATTCAAAGAAAGAAGTCCAAAGTAGTCCTAAC
Downstream sequence
TATGACAGCAAATAATATTATACCAGATAATCCTAACCAAGCTTAGAAATAGCCTTTCCTTCACATTCCAGCTTATTATGCTTattcttcattcagtaaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate