Basic Information
VIS ID
TVIS30007870
Fusion event
HIV-PGAP1 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
chr2
Cytoband
q33.1
Reference genome
GRCh37/hg19
Start
197717663/196852939 (Hg38)
End
197717663/196852939 (Hg38)
Orient
+
Location type
Intronic
Target gene
PGAP1
miRNAs that regulate target gene
hsa-mir-590-3p ; hsa-mir-6128 ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p ; hsa-mir-1908-5p ; hsa-mir-335-5p ; hsa-mir-340-3p ; hsa-mir-3656 ; hsa-mir-3672 ; hsa-mir-3934-5p ; hsa-mir-4662a-5p ; hsa-mir-4676-5p ; hsa-mir-4684-5p ; hsa-mir-4786-5p ; hsa-mir-548c-3p ; hsa-mir-575 ; hsa-mir-663a ; hsa-mir-6771-3p ; hsa-mir-6787-5p ; hsa-mir-6827-3p ; hsa-mir-6849-3p ; hsa-mir-6864-3p ; hsa-mir-769-5p
Nearest miRNA
hsa-mir-10b/Upstream/7719828; hsa-mir-1244-1/Downstream/9930295;
Nearest TSS
ENST00000437798/Upstream/6956; ENST00000449346/Downstream/21017;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/53091, chr2-CpG: 18/Downstream/74084
Upstream sequence
acttggacaagacagaaaggctaagcatgttatcaaaggtctgagtaagtcatgaaaaaagttgatgaagagtgactttatgaaagaaaattctgcatgt
Downstream sequence
gatcaaattggctataaaagagatttgtgtctttctaaagattaagattcgatattaaagatatactaatgcaaaactaaaaatttggtcccctatgtag
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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