Basic Information
VIS ID
TVIS30002973
Fusion event
HIV-ZNF563 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
chr19
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
12441632/12330818 (Hg38)
End
12441632/12330818 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
ZNF563
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-5089-5p ; hsa-mir-6807-5p ; hsa-mir-6516-3p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-4252 ; hsa-mir-6889-3p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-6849-3p ; hsa-mir-6504-3p ; hsa-mir-4438 ; hsa-mir-4701-5p ; hsa-mir-3945 ; hsa-mir-365b-5p ; hsa-mir-365a-5p ; hsa-mir-8052 ; hsa-mir-3199 ; hsa-mir-6743-5p ; hsa-mir-4688
Nearest miRNA
hsa-mir-1181/Upstream/835196; hsa-let-7e/Downstream/372783;
Nearest TSS
ENST00000633603/Upstream/35931; ENST00000420038/Downstream/2674;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/36062, chr19-CpG: 46/Downstream/2400
Upstream sequence
tgcctaacacctccatatacaataatcaactaattacagacctGCCTGTTTTCAtgaatttttattcactctattacctcagcttccattttgaatgtgg
Downstream sequence
ttctctacctttctcataccagaaaaagtattttaagagccttgagacagtattcatttttctgTAGTCATCATGGAAGAAAGTTTTTTCCAATTTATTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate