Basic Information
VIS ID
TVIS30003711
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
35770280/35770178 (Hg38)
End
35770280/35770178 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5A
Target gene
SPEF2
Nearest miRNA
hsa-mir-10397/Upstream/3375703; hsa-mir-103a-1/Downstream/377714;
Nearest TSS
ENST00000502646/Upstream/69555; ENST00000635995/Downstream/1558;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/151941, chr5-CpG: 85/Downstream/381217
Upstream sequence
GGGTTCTCATTTCTTGGGGTGACACTCATAAACAACCTTCGCCTCCCCAGGGGCAGTTGAACTTATTGCAAAATGTCCAGTATTTCTAACTGCAAGTACA
Downstream sequence
ACCCCAGTGACACAAGCCTGAAGACAAACGTGTACATATATATAATCttaatttacaaataataattgcatatatttataaagtacactgtgaagttttg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate