Basic Information
VIS ID
TVIS30011336
Fusion event
HIV-SLAMF1 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
q23.3
Reference genome
GRCh37/hg19
Start
160613656/160643866 (Hg38)
End
160613656/160643866 (Hg38)
Orient
+
Location type
Intronic
Target gene
SLAMF1
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-6802-3p ; hsa-mir-6781-3p ; hsa-mir-2682-3p ; hsa-mir-4778-3p ; hsa-mir-6837-3p ; hsa-mir-6754-3p ; hsa-mir-412-3p ; hsa-mir-877-3p ; hsa-mir-3620-3p ; hsa-mir-6865-3p ; hsa-mir-6877-3p ; hsa-mir-6819-3p ; hsa-mir-194-5p ; hsa-mir-4448 ; hsa-mir-496 ; hsa-mir-4682 ; hsa-mir-4653-5p ; hsa-mir-3921 ; hsa-mir-3121-5p
Nearest miRNA
hsa-mir-101-1/Upstream/743787; hsa-mir-1182/Downstream/583320;
Nearest TSS
ENST00000473358/Upstream/64350; ENST00000588034/Downstream/3092;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/224270, chr1-CpG: 24/Downstream/158027
Upstream sequence
tttgaattattctcttccagttattttgatatgtacaatagattattgttaactatagtcaccgtactgatctatcaaacacgaagacctatACATTTGG
Downstream sequence
AAAGACACACAAGAAACTGGTCACAGTGGTTGCCTCCAGCATGAGGTATGGAAGGGAAATTAGTCTTCACTAAATACTCTTGTGTACTGTTGAAGTTTCA
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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