Basic Information
VIS ID
TVIS30012693
Fusion event
HIV-USP34 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
p15
Reference genome
GRCh37/hg19
Start
61437531/61210396 (Hg38)
End
61437531/61210396 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
USP34
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-mir-21-5p ; hsa-mir-23a-3p ; hsa-mir-19b-3p ; hsa-mir-127-5p ; hsa-mir-485-5p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-1301/Upstream/822951; hsa-mir-10b/Downstream/995430;
Nearest TSS
ENST00000437798/Upstream/6066; ENST00000603199/Downstream/4267;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/32170, chr2-CpG: 154/Downstream/259826
Upstream sequence
ctgtcttttattccatatttttactgtaccttttctatgtttaaatacgtttagatacacaaatacttacctttctgttataattgcctacagtattcag
Downstream sequence
tgtagtaacatgctatacagatttagagcctaggaacagttggctataccatatatcctaggggtgtagcaggcgctactatctagttgtgtgtgagtag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate