Basic Information
VIS ID
TVIS30003532
Fusion event
HIV-SFMBT1 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
chr3
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
53075305/53041289 (Hg38)
End
53075305/53041289 (Hg38)
Orient
+
Location type
Intronic
Target gene
SFMBT1
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-26a-5p ; hsa-let-7b-5p
Nearest miRNA
hsa-let-7g/Upstream/194737; hsa-mir-12124/Downstream/2811203;
Nearest TSS
ENST00000440867/Upstream/112794; ENST00000477794/Downstream/3980;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/42189, chr3-CpG: 299/Downstream/3651
Upstream sequence
TAAACATCCTCTTGAATAAAAGAAAGAATAATTACATACACGTTTTCAGGTGTCTCTGAGTTAGAGGAAAAGGTTTACAATCAAATCATTAAGACTTATG
Downstream sequence
CAGTGAAGTCATATGATTTTTCTATTAATAATGTGTCAGTGTTCTTATCCTTCCTCCCCCTTTTGAAAAGTTTAAACATGAATCTGCAACAACCTGACCA
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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