Basic Information
VIS ID
TVIS30008639
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
114629147/113707991 (Hg38)
End
114629147/113707991 (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/555629; hsa-mir-1305/Downstream/948768;
Nearest TSS
ENST00000502981/Upstream/190348; ENST00000503557/Downstream/53077;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1001640, chr4-CpG: 86/Downstream/52922
Upstream sequence
gcatctgataccaattctctggaatattagaggctcagttgttagttCCCTTCCATTCTCTGGTGAATACAATACATAAGATTTTGAATTTTCCAAAAGG
Downstream sequence
AATGAAGATACAACACCATGAAACTTCCCTGAATTTTTGCTCATATTATTCACACAACTGAAAAGTGGGAAAGTATAAGTATACCAACCATAAAAAAAAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate