Basic Information
VIS ID
TVIS30005701
Fusion event
HIV-ATRNL1 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
chr10
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
117163346/115403836 (Hg38)
End
117163346/115403836 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
ATRNL1
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-mir-379-3p ; hsa-mir-3613-3p ; hsa-mir-3163 ; hsa-mir-577 ; hsa-mir-6771-3p ; hsa-mir-4282 ; hsa-mir-548as-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac
Nearest miRNA
hsa-mir-107/Upstream/1229657; hsa-mir-202/Downstream/1423652;
Nearest TSS
ENST00000439456/Upstream/101863; ENST00000424738/Downstream/63338;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/309501, chr10-CpG: 18/Downstream/721466
Upstream sequence
ccagtgcacccagccTCCAACACTAAATATTGTTAAGATTTTTCTAGGTTGTTTTGTTGCTGTATTTGCAACTGCAGATAAGACTAATGGTTTCTTTGTG
Downstream sequence
ATAATGAGTTAAGCAGCCTTGATGTCTAATATATAAGATACTTGAGGAACTCTTATGCTTGCTTTATTCTGTAAACATTTATTCACTGAGAGGCTATGAG
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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