Basic Information
VIS ID
TVIS30011249
Fusion event
HIV-SMAP2 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
chr1
Cytoband
p34.2
Reference genome
GRCh37/hg19
Start
40876082/40410410 (Hg38)
End
40876082/40410410 (Hg38)
Orient
+
Location type
Intronic
Target gene
SMAP2
miRNAs that regulate target gene
hsa-mir-708-5p ; hsa-mir-652-3p ; hsa-mir-92b-3p ; hsa-mir-92a-3p ; hsa-mir-25-3p ; hsa-let-7e-5p
Nearest miRNA
hsa-mir-12136/Upstream/2321081; hsa-mir-101-1/Downstream/343945;
Nearest TSS
ENST00000473358/Upstream/13610; ENST00000487871/Downstream/3567;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/36060, chr1-CpG: 53/Downstream/39523
Upstream sequence
AACTTCTGCCTATCGGtgaattcttgccttaatctgtagttagaaggtgttagtgatgattcccagttttgaattatttcttgggatggacatgttgcat
Downstream sequence
atactagatcaaataAAACAGtatatgtgtatatgtactacagctatatctatctacatagatatatacacacatatataCTTTTTTCCTGTAAATGAAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate