Basic Information
VIS ID
TVIS30002911
Fusion event
HIV-TPGS1 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
p13.3
Reference genome
GRCh37/hg19
Start
509821/509821 (Hg38)
End
509821/509821 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
TPGS1
miRNAs that regulate target gene
hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-2276-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-1304-3p ; hsa-mir-1250-5p ; hsa-mir-6741-3p ; hsa-mir-1281 ; hsa-mir-5193 ; hsa-mir-4485-5p ; hsa-mir-6890-3p ; hsa-mir-7703 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-661 ; hsa-mir-4252 ; hsa-mir-6776-5p ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-6742-3p ; hsa-mir-6849-3p ; hsa-mir-1273g-3p ; hsa-mir-6501-3p ; hsa-mir-508-5p ; hsa-mir-3675-3p ; hsa-mir-3974 ; hsa-mir-4293 ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4684-5p ; hsa-mir-4768-3p ; hsa-mir-548c-3p ; hsa-mir-624-3p ; hsa-mir-6771-3p
Nearest miRNA
hsa-mir-1302-11/Upstream/437711; hsa-let-7e/Downstream/295119;
Nearest TSS
ENST00000633603/Upstream/1988; ENST00000586788/Downstream/21891;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1742, chr19-CpG: 137/Downstream/9026
Upstream sequence
atctgcaaagctgctgtctcaaataagctctcagtctgaggttctggatgggcgtgagtttggtgggcaccagtcaccccaggacaGGAGTGGAGCCATT
Downstream sequence
GGCTGGAAGAGTTCTCATAGCAGGGACTCAGGGCAAGGGTGGTGCTGGTGGCAGATGCATCCCGGCCCTGGGCTCGCCTGGGCTCCCCAGAGACACAGCC
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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