Basic Information
VIS ID
TVIS30009137
Fusion event
HIV-CDC40 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
chr6
Cytoband
q21
Reference genome
GRCh37/hg19
Start
110552514/110231311 (Hg38)
End
110552514/110231311 (Hg38)
Orient
+
Location type
UTR3
Fragile sites / regions
FRA6F
Target gene
CDC40
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-1269b
Nearest miRNA
hsa-mir-10398/Upstream/3447091; hsa-mir-1202/Downstream/8837736;
Nearest TSS
ENST00000381078/Upstream/7015; ENST00000569685/Downstream/126666;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/50693, chr6-CpG: 114/Downstream/126340
Upstream sequence
AAGATAGTccggacgcggtggcacatgcctgtaatcccagcactttgggaggctgaggcaggtgaatcacctgaggtcaggagttcaagaccagcctggc
Downstream sequence
caacatagtgaaaccccgtctctactaaaaacacaaaaattagccaggcttggtggctggcgcctgtaattccagctactcagaaggctgaggcagggag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate