Basic Information
VIS ID
TVIS30001727
Fusion event
HIV-LARP4B 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
chr10
Cytoband
p15.3
Reference genome
GRCh37/hg19
Start
898110/852170 (Hg38)
End
898110/852170 (Hg38)
Orient
+
Location type
Intronic
Target gene
LARP4B
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-30a-5p ; hsa-let-7d-5p ; hsa-mir-218-5p ; hsa-mir-4642 ; hsa-mir-542-3p ; hsa-mir-4504 ; hsa-mir-3622b-5p ; hsa-mir-642b-3p ; hsa-mir-642a-3p ; hsa-mir-4715-5p ; hsa-mir-106a-3p ; hsa-mir-191-3p ; hsa-mir-603 ; hsa-mir-6776-3p ; hsa-mir-3941 ; hsa-mir-4789-3p ; hsa-mir-8485 ; hsa-mir-6822-3p ; hsa-mir-21-3p ; hsa-mir-3591-3p ; hsa-mir-4768-5p ; hsa-mir-6833-3p ; hsa-mir-6873-3p
Nearest miRNA
hsa-mir-5699/Upstream/210392; hsa-mir-107/Downstream/1223849;
Nearest TSS
ENST00000439456/Upstream/26926; ENST00000435531/Downstream/33592;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/42225, chr10-CpG: 134/Downstream/79179
Upstream sequence
aactaagtaagtttagtaagtaagaaaggaaagaagaaaaaaggaaaactcctgcccacatgacttgtttcacttcctcatatgagggtgaaataatacg
Downstream sequence
taacctcttccaaaaacttaaatagaaagaaaaacactgaaatgaaaactagaaaccaagatcccaggtgtaaaaattctaagcaaagttttggtaaatg
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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