Basic Information
VIS ID
TVIS30004706
Fusion event
HIV-SH3GL1 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
4372040/4372043 (Hg38)
End
4372040/4372043 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
SH3GL1
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-320b ; hsa-mir-877-5p ; hsa-mir-744-5p ; hsa-mir-296-3p ; hsa-mir-193b-3p ; hsa-mir-320a ; hsa-mir-218-5p ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-122-5p ; hsa-mir-1227-3p ; hsa-mir-1236-5p ; hsa-mir-1296-3p ; hsa-mir-2110 ; hsa-mir-3202 ; hsa-mir-4271 ; hsa-mir-4481 ; hsa-mir-4725-3p ; hsa-mir-4745-5p ; hsa-mir-4747-5p ; hsa-mir-485-5p ; hsa-mir-491-5p ; hsa-mir-504-3p ; hsa-mir-5196-5p ; hsa-mir-550b-2-5p ; hsa-mir-5586-3p ; hsa-mir-566 ; hsa-mir-642a-3p ; hsa-mir-642b-3p ; hsa-mir-6514-5p ; hsa-mir-6780b-5p ; hsa-mir-6789-3p ; hsa-mir-6884-5p ; hsa-mir-759 ; hsa-mir-885-3p
Nearest miRNA
hsa-mir-1227/Upstream/410531; hsa-let-7e/Downstream/73935;
Nearest TSS
ENST00000633603/Upstream/8254; ENST00000587580/Downstream/8249;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/88, chr19-CpG: 57/Downstream/28077
Upstream sequence
TCAACCGCAGCGAATACCTGTGACAAGGCCTCATCtttttttttctttttaaagaggcaggggtctcactatgttgcccaggctggtctcaaactcggcc
Downstream sequence
tcaagcaatcctacctcagccttccaagtgccaaaactacaggcatgacacagtgtgcctggccAAGGCCATACATTTACAGGACTAGGGGACAACAGCC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate