Basic Information
VIS ID
TVIS30008638
Fusion event
HIV-CAMK2D 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
chr4
Cytoband
q26
Reference genome
GRCh37/hg19
Start
114471894/113550738 (Hg38)
End
114471894/113550738 (Hg38)
Orient
-
Location type
Intronic
Target gene
CAMK2D
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-484 ; hsa-let-7a-5p ; hsa-mir-30c-5p ; hsa-mir-185-5p
Nearest miRNA
hsa-mir-12113/Upstream/398376; hsa-mir-1305/Downstream/1106021;
Nearest TSS
ENST00000502981/Upstream/33095; ENST00000503557/Downstream/210330;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/844387, chr4-CpG: 86/Downstream/210175
Upstream sequence
TGAAGGGTAACATTAATGAAATTCCCTAGTTTAGTACCTTGATTAAAAGTATTACTGTTTCTTGGCAAGTGGCCAAATAGCTACTTCCAGAGGTTCCCCA
Downstream sequence
TGGCCCCTTTCAGGACCCTAATGTGGGGATTTGGGGTAAACTGAGCAAGTGATGATTCACTCATCATAGTATAAATTACACAGAATTTTCTATTTGACTT
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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