Basic Information
VIS ID
TVIS30009851
Fusion event
HIV-RALGDS 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
chr9
Cytoband
q34.2
Reference genome
GRCh37/hg19
Start
136001908/133126521 (Hg38)
End
136001908/133126521 (Hg38)
Orient
-
Location type
Intronic
Target gene
RALGDS
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-615-3p ; hsa-mir-186-5p ; hsa-mir-183-5p ; hsa-mir-374a-5p
Nearest miRNA
hsa-let-7a-1/Upstream/74462; hsa-mir-126/Downstream/1252890;
Nearest TSS
ENST00000422679/Upstream/5345; ENST00000426651/Downstream/2880;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/4954, chr9-CpG: 41/Downstream/17800
Nearest cancer related gene
RALGDS(OG, No orient, 0)
Upstream sequence
taagccaacagtaaaaggtcaggcgacttcacataaaaacccacatttccctcttctcctgtaactctgggtgacctgaccacaccgggtctgtgttccc
Downstream sequence
aagtgccgccggaagctgactgcagctgccccctgtagccagggcatgtgTGGGGACTGCTCTGACAACTGTCCCCCACTCCCGCAGTGCCCAGTGCCCG
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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