Basic Information
VIS ID
TVIS30009368
Fusion event
HIV-LMTK2 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
chr7
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
97816710/98187398 (Hg38)
End
97816710/98187398 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7F
Target gene
LMTK2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-615-3p ; hsa-mir-1277-5p ; hsa-mir-3149 ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-6513-5p ; hsa-mir-5089-5p ; hsa-mir-6728-5p ; hsa-mir-769-3p ; hsa-mir-450b-3p ; hsa-mir-6807-5p ; hsa-mir-3147 ; hsa-mir-4425 ; hsa-mir-1292-3p ; hsa-mir-411-5p ; hsa-mir-6832-5p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-4753-3p ; hsa-mir-3157-5p ; hsa-mir-1236-3p ; hsa-mir-6515-3p ; hsa-mir-6758-3p ; hsa-mir-4691-3p ; hsa-mir-6875-3p ; hsa-mir-5706 ; hsa-mir-4782-5p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-4320 ; hsa-mir-6839-5p ; hsa-mir-378j ; hsa-mir-518c-5p ; hsa-mir-150-5p ; hsa-mir-1306-5p ; hsa-mir-216a-5p ; hsa-mir-4530 ; hsa-mir-7977
Nearest miRNA
hsa-mir-10525/Upstream/222917; hsa-mir-10399/Downstream/694252;
Nearest TSS
ENST00000635602/Upstream/60833; ENST00000314018/Downstream/24029;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/15680, chr7-CpG: 35/Downstream/6699
Upstream sequence
tattgaagtgaaagaaGAAACTGAAAGGGGTGTGGACTATCATGTTTATACTATGATTTATAGGAGTCAGTTTAATGGGAGCTAAAAAGATGCACCTAAA
Downstream sequence
ACTTTGACTAACAATTTCTGTCACAGCCTTCTTAATTTATAGCTATGTTTTATGTGCTGTTGTCCTGCTTTTTTTTTTCTCTCCTTGCTTTCTTTTGGAT
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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