Basic Information
VIS ID
TVIS30006323
Fusion event
HIV-MIR548F5 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
chr13
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
36160511/35586374 (Hg38)
End
36160511/35586374 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
MIR548F5
Nearest miRNA
hsa-mir-2276/Upstream/11423870; hsa-mir-1267/Downstream/4077660;
Nearest TSS
ENST00000623511/Upstream/109165; ENST00000379922/Downstream/6632;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/107392, chr13-CpG: 75/Downstream/544529
Upstream sequence
TTAGTATGAATACATTTTAAGTAACTTGGAAACCACTGATAGGTGACAAACTACAATTATTTTTGTTAAGAAAAATGTTGTCAGAATTATGATTCTGTTT
Downstream sequence
GAGCACAGATTTTATCCCTTTCATAATTCTACACCAGCATAAGAAGTTAAGGAAGTCTGGACTAACTAGTCTTTTGAGAAAACAAACCCAAATCTTACTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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