Basic Information
VIS ID
TVIS30003713
Fusion event
HIV-SPEF2 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
p13.2
Reference genome
GRCh37/hg19
Start
35808989/35808887 (Hg38)
End
35808989/35808887 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5A
Target gene
SPEF2
Nearest miRNA
hsa-mir-10397/Upstream/3414412; hsa-mir-103a-1/Downstream/339005;
Nearest TSS
ENST00000502646/Upstream/27567; ENST00000515665/Downstream/18131;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/190650, chr5-CpG: 85/Downstream/342508
Upstream sequence
atatgtatatatgtaaaacccaatatatatacatatatgtatgtaacatatacatatattttttaaatatatatgtaAAAAAATTGGGTTTTACatatat
Downstream sequence
atatatatatataaaaCAAGCTAGCAGCTGTTTAGACACGAAGCCTATGCAGTAGTGAAATATGATTACAGCATGTaagaacacaggctctggaatcagg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate