Basic Information
VIS ID
TVIS30003136
Fusion event
HIV-CDC42EP3 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
chr2
Cytoband
p22.2
Reference genome
GRCh37/hg19
Start
37870390/37643247 (Hg38)
End
37870390/37643247 (Hg38)
Orient
-
Location type
UTR3
Target gene
CDC42EP3
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-122-5p ; hsa-mir-218-5p ; hsa-mir-106a-3p ; hsa-mir-129-5p ; hsa-mir-138-2-3p ; hsa-mir-3680-3p ; hsa-mir-4482-3p ; hsa-mir-450b-5p ; hsa-mir-507 ; hsa-mir-557 ; hsa-mir-7159-3p
Nearest miRNA
hsa-mir-1301/Upstream/2171761; hsa-mir-10b/Downstream/9734428;
Nearest TSS
ENST00000437798/Upstream/43111; ENST00000431712/Downstream/4411;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/297993, chr2-CpG: 167/Downstream/27752
Upstream sequence
GGGTTTCCTTATCTTTAAACAAGTAAAGATAAATTAGGTTAAAGTGGGAGAAGGTTCACAGGATGAGAACATCAATTCAGCTCACAGCAGGTATGGGTCT
Downstream sequence
AAAGTGCCTCTCTGCAGGAAAGAAAGCCACCACCAGCAGTCCACCTGCTCTCAGGGGAAGGGACCAGGCATTGGAAAGGCTGCCTCGGGAGAAGTGACTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate