Basic Information
VIS ID
TVIS30006630
Fusion event
HIV-SPG21 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
chr15
Cytoband
q22.31
Reference genome
GRCh37/hg19
Start
65273623/64981285 (Hg38)
End
65273623/64981285 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA15A
Target gene
SPG21
Nearest miRNA
hsa-mir-10393/Upstream/218770; hsa-mir-11181/Downstream/737961;
Nearest TSS
ENST00000557528/Upstream/29850; ENST00000334287/Downstream/342;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/69092, chr15-CpG: 61/Downstream/8305
Upstream sequence
ATCTCCTTTTCTTTCCTCAGGGCTAACGTATTCCACAGAACTACTTAGAACTACTTTATAATCTTCCAAAGGGCTGCTGCTTCTCTGTTTCTTCCCCCTC
Downstream sequence
CTCCttttttttttttttttttgagacagagtctcgctctgtagcccaggctggagtgcagtggcacgatcttggctcactacaacctctgcctcccagg
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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