Basic Information
VIS ID
TVIS30004400
Fusion event
HIV-PATL1 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
chr11
Cytoband
q12.1
Reference genome
GRCh37/hg19
Start
59430693/59663220 (Hg38)
End
59430693/59663220 (Hg38)
Orient
-
Location type
Intronic
Target gene
PATL1
miRNAs that regulate target gene
hsa-mir-19b-3p ; hsa-mir-196a-5p ; hsa-mir-4666a-5p ; hsa-mir-6809-3p ; hsa-mir-297 ; hsa-mir-548aw ; hsa-mir-4753-3p ; hsa-mir-567 ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-130b-5p ; hsa-mir-4698 ; hsa-mir-33a-3p ; hsa-mir-455-5p ; hsa-mir-19a-3p ; hsa-mir-3714 ; hsa-mir-885-3p ; hsa-mir-657 ; hsa-mir-3665 ; hsa-mir-6865-5p ; hsa-mir-6815-5p ; hsa-mir-6891-5p ; hsa-mir-4519 ; hsa-mir-3173-3p ; hsa-mir-148a-3p ; hsa-mir-152-3p ; hsa-mir-148b-3p
Nearest miRNA
hsa-mir-129-2/Upstream/68062; hsa-let-7a-2/Downstream/545851;
Nearest TSS
ENST00000527297/Upstream/15334; ENST00000530498/Downstream/5760;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/47283, chr11-CpG: 97/Downstream/5508
Upstream sequence
GTGCTTGACCTGAGTCCATTATTGGTCAAAATGATAAAAGGTAGGCAAAAGAATAACAGACAAATGAAGGGAAAGAGATTATCCGTAATAACGAACTAAC
Downstream sequence
CTATACTCTGATACGGGTTACTGAATTCCTGGCTGCTTCTATAAACTTATACTTGTAATAACCCCTGAAGCCTGTCTCAGGGAGTTTTGAATGAAAACAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate