Basic Information
VIS ID
TVIS30003108
Fusion event
HIV-LAIR1 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
chr19
Cytoband
q13.42
Reference genome
GRCh37/hg19
Start
54878295/54366688 (Hg38)
End
54878295/54366688 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
LAIR1
miRNAs that regulate target gene
hsa-mir-744-5p ; hsa-mir-378a-5p ; hsa-mir-6778-3p ; hsa-mir-4454 ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-150-5p ; hsa-mir-1224-3p ; hsa-mir-186-3p ; hsa-mir-3692-3p ; hsa-mir-6808-3p ; hsa-mir-4436b-5p ; hsa-mir-6509-3p ; hsa-mir-197-3p ; hsa-mir-7973 ; hsa-mir-3160-5p ; hsa-mir-6511b-3p ; hsa-mir-6511a-3p ; hsa-mir-1273g-3p ; hsa-mir-181a-2-3p
Nearest miRNA
hsa-let-7e/Upstream/84508; hsa-mir-10394/Downstream/278621;
Nearest TSS
ENST00000633603/Upstream/1574; ENST00000462769/Downstream/1911;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/159181, chr19-CpG: 54/Downstream/48541
Upstream sequence
agccattctcctgcctcagcctcccgattagctgggactacaggcacccaccaccacgcccggctaattttttgtatttttagcagagtcggggtttcac
Downstream sequence
cgtgttagccaggatggtctcgatctcctgacctcgtgatccacccgcctcggcctcccaaagtgctgggattacaggcgtgaaccaccaagcctggcca
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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