Basic Information
VIS ID
TVIS30010651
Fusion event
HIV-CDKL4 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
p22.1
Reference genome
GRCh37/hg19
Start
39475343/39248202 (Hg38)
End
39475343/39248202 (Hg38)
Orient
+
Location type
Intronic
Target gene
CDKL4
Nearest miRNA
hsa-mir-1301/Upstream/3776716; hsa-mir-10b/Downstream/8129473;
Nearest TSS
ENST00000437798/Upstream/18614; ENST00000366187/Downstream/12915;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/4135, chr2-CpG: 81/Downstream/188554
Nearby gene
MAP4K3(No orient, 1064)
Upstream sequence
tggacacactcagaagcactgATTTAAATTTAGTGCCCACcagtggtttcatgttgcgatgcacatcagaatcatttgtacaactttataaaaatatagg
Downstream sequence
ttactgagcctcagccctcaagattatgactcCAGATATATCTTAGAAAGCTCCTGGGTAATACACAACCAGTTATGTATTTTATTTTTTGAAAATGTTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate