Basic Information
VIS ID
TVIS30004525
Fusion event
HIV-AKAP13 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
chr15
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
86100126/85556895 (Hg38)
End
86100126/85556895 (Hg38)
Orient
-
Location type
Intronic
Target gene
AKAP13
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-423-5p ; hsa-mir-193b-3p ; hsa-mir-484 ; hsa-mir-149-5p ; hsa-mir-16-5p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-8074 ; hsa-mir-6778-3p ; hsa-mir-4287 ; hsa-mir-4685-3p ; hsa-mir-1281 ; hsa-mir-3667-3p ; hsa-mir-6832-3p ; hsa-mir-183-5p
Nearest miRNA
hsa-mir-10393/Upstream/176233; hsa-mir-11181/Downstream/213601;
Nearest TSS
ENST00000557528/Upstream/1449; ENST00000560340/Downstream/23283;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/175446, chr15-CpG: 20/Downstream/201823
Nearest cancer related gene
AKAP13(OG, No orient, 0)
Upstream sequence
actcaggtcagttgttaggtcacctcctcagaaagctcttcAGAAGAAGCCGCCATTTCCAGTCGAAGACATTTTCTACCATAAGCACCTGTTTTATTTT
Downstream sequence
CCTTAAGTGAAGATTTGGATTTGCGTTTTAGAATACATACAGAGTAAATAAAAATTCTCTACACAATTTTGCTGTAAACGTCTTCTGGGATTTTTGTGTA
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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