Basic Information
VIS ID
TVIS30008548
Fusion event
HIV-CC2D2A 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
p15.32
Reference genome
GRCh37/hg19
Start
15544218/15542595 (Hg38)
End
15544218/15542595 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA4D
Target gene
CC2D2A
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-92a-3p ; hsa-mir-544a ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-340-5p ; hsa-mir-555 ; hsa-mir-873-3p ; hsa-mir-6861-5p ; hsa-mir-4329 ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-4463 ; hsa-mir-32-3p ; hsa-mir-583 ; hsa-mir-186-5p ; hsa-mir-3133
Nearest miRNA
hsa-mir-12113/Upstream/1914638; hsa-mir-12115/Downstream/4985680;
Nearest TSS
ENST00000502981/Upstream/5610; ENST00000512202/Downstream/8143;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/537458, chr4-CpG: 145/Downstream/112146
Upstream sequence
tttcccactgagcctgaatataattttagaactcttctcaatacagtacttcaggtagccactaccTATTCCTAGTGAGTATGACTGACAAAGTCTGCAG
Downstream sequence
GTACCATCATGgctgtataattaataaaatatttacatactctgtactgactgataaatagctgctgccctgaccttcccagatgccatcctggccacat
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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