Basic Information
VIS ID
TVIS30008542
Fusion event
HIV-ZBTB49 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
p16.3
Reference genome
GRCh37/hg19
Start
4311829/4310102 (Hg38)
End
4311829/4310102 (Hg38)
Orient
+
Location type
Intronic
Target gene
ZBTB49
miRNAs that regulate target gene
hsa-mir-3942-3p ; hsa-mir-3977 ; hsa-mir-6807-5p ; hsa-mir-6797-5p ; hsa-mir-5100 ; hsa-mir-1249-5p ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4768-3p ; hsa-mir-10b-3p ; hsa-mir-556-5p ; hsa-mir-4779
Nearest miRNA
hsa-mir-4800/Upstream/2059946; hsa-mir-12113/Downstream/1613173;
Nearest TSS
ENST00000502981/Upstream/7370; ENST00000509015/Downstream/11860;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/19334, chr4-CpG: 233/Downstream/75764
Upstream sequence
TTACGATTCCTGACTTTTTTTTGATATAAACACTCAACTGCCGTTAAGAGTGCTCATGATAGGGAATAGATGCTGGGTTTGTTCATGTTTAAATACTGAG
Downstream sequence
GTTCAAGTACCTGTCAGAAGGAGTTTATTATAAAAATTGCTGAAGGCAGATGTTAATTCTTCTCTACAGCATAGTTTTTCTGTTAAAAATTCTAACTCCA
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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