Basic Information
VIS ID
TVIS30009806
Fusion event
HIV-SCAI 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
chr9
Cytoband
q33.3
Reference genome
GRCh37/hg19
Start
127798139/125035860 (Hg38)
End
127798139/125035860 (Hg38)
Orient
-
Location type
Intronic
Target gene
SCAI
miRNAs that regulate target gene
hsa-mir-1273e ; hsa-mir-6771-5p ; hsa-mir-873-5p ; hsa-mir-4649-3p ; hsa-mir-6746-5p ; hsa-mir-302f ; hsa-mir-6516-5p ; hsa-mir-455-3p ; hsa-mir-4758-3p ; hsa-mir-4537 ; hsa-mir-4286 ; hsa-mir-3651 ; hsa-mir-6769a-3p ; hsa-mir-3943 ; hsa-mir-4323 ; hsa-mir-625-5p ; hsa-mir-129-5p ; hsa-mir-3149 ; hsa-mir-411-5p
Nearest miRNA
hsa-let-7a-1/Upstream/342062; hsa-mir-12126/Downstream/2654827;
Nearest TSS
ENST00000422679/Upstream/32170; ENST00000416065/Downstream/107627;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/94325, chr9-CpG: 70/Downstream/107173
Upstream sequence
ATAAAATGAATAATGggccaggcacagtgactcaagcctgcaatcctagcactttgggaggccaaggcaggaggatcatttgaggccaggagttcgagac
Downstream sequence
cagcatgggcaacgaagtgagaccttgtctctacaaaaaaatttaaaaattagccaaccagcagccctcggggctgctctgcctacagagtagccattct
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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