Basic Information
VIS ID
TVIS30003754
Fusion event
HIV-C5orf56 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
chr5
Cytoband
q31.1
Reference genome
GRCh37/hg19
Start
131784564/132448872 (Hg38)
End
131784564/132448872 (Hg38)
Orient
+
Location type
ncRNA_intronic
Fragile sites / regions
FRA5C
Target gene
C5orf56
Nearest miRNA
hsa-mir-10397/Upstream/83273; hsa-mir-103a-1/Downstream/978724;
Nearest TSS
ENST00000502646/Upstream/22158; ENST00000416135/Downstream/780;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/37688, chr5-CpG: 140/Downstream/41278
Upstream sequence
gtgaacactgtggagcctctcactacctctctgatccctctcctgcttctcccttattctctctactctggctacaccaccctcctcacttatctgttaa
Downstream sequence
catgtcagacaggccctcactgccaggctgttgcacttgccattccctccacctgggaagcttcttccccgttaattctcagggctcatgtcctcacttt
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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