Basic Information
VIS ID
TVIS30005705
Fusion event
HIV-INPP5F 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
q26.11
Reference genome
GRCh37/hg19
Start
121579470/119819958 (Hg38)
End
121579470/119819958 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10F ; FRA10A ; FRA10B
Target gene
INPP5F
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-335-5p ; hsa-mir-155-5p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-186-5p ; hsa-mir-30c-5p ; hsa-mir-20a-5p ; hsa-mir-142-3p ; hsa-mir-106b-5p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20b-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-mir-107/Upstream/441915; hsa-mir-202/Downstream/138555;
Nearest TSS
ENST00000439456/Upstream/451; ENST00000470478/Downstream/38279;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/1085, chr10-CpG: 135/Downstream/52184
Upstream sequence
TTAAACAATGACCTCATTCTTACGCAGATTTAATAAATTTTTTTTCCACTATTATTTTCTGCTTGTTATTAGTAGCATTTTGATAAGGTCTAGGGAATAG
Downstream sequence
GTATGAAATCCCAAGGGAGAAATGTCGGCTTTCTTACAGTGGAATTTGGAGACCAGCATAAGAATGCAGAAACATCTCTCTTTTGCTGGAAAGGCTATTA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate