Basic Information
VIS ID
TVIS30003734
Fusion event
HIV-RASA1 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
chr5
Cytoband
q14.3
Reference genome
GRCh37/hg19
Start
86633838/87338021 (Hg38)
End
86633838/87338021 (Hg38)
Orient
+
Location type
Exonic
Target gene
RASA1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-21-5p ; hsa-mir-132-3p ; hsa-mir-31-5p ; hsa-mir-214-3p ; hsa-mir-30c-5p ; hsa-mir-92a-3p ; hsa-mir-26a-5p ; hsa-mir-96-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p
Nearest miRNA
hsa-mir-10397/Upstream/223067; hsa-mir-103a-1/Downstream/1328832;
Nearest TSS
ENST00000502646/Upstream/49; ENST00000644559/Downstream/39159;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/70224, chr5-CpG: 55/Downstream/74458
Upstream sequence
TCTCTGtatttaaaatttttaaatttaataactttaaaattGCTATTTTCAGTTTCTTAAAAGGAGATATGTTCATTGTTCATAATGAATTAGAAGATGG
Downstream sequence
ATGGATGTGGGTTACAAATTTAAGAACAGATGAACAAGGCCTTATTGTTGAAGACCTAGTAGAAGAGGTGGTAAGTTTTGTTCTTTTCTTCTCAATTCTA
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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