Basic Information
VIS ID
TVIS30006123
Fusion event
HIV-LINC02450 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
chr12
Cytoband
q12
Reference genome
GRCh37/hg19
Start
43100683/42706881 (Hg38)
End
43100683/42706881 (Hg38)
Orient
-
Location type
Intronic
Target gene
LINC02450
Nearest miRNA
hsa-mir-1244-3/Upstream/383022; hsa-let-7i/Downstream/4480931;
Nearest TSS
ENST00000382841/Upstream/14665; ENST00000553006/Downstream/259241;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/116303, chr12-CpG: 126/Downstream/844035
Upstream sequence
AGTAGTGTCACCTTAAGCAGAAGGGATTGAGGTACAAATTCACATCTCAGTAAACACTAAAGTGCTTAATTAGGAGCCCAGGATTGCattgcttgggttc
Downstream sequence
taatcctggcttcaccattattcgctgtgtgatcttggggaagttgtcagctcttccttggcttcagtttcctagtctataaaaaggatgtaatatccca
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate