Basic Information
VIS ID
TVIS30002913
Fusion event
HIV-CNN2 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
chr19
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
1029875/1029876 (Hg38)
End
1029875/1029876 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
CNN2
miRNAs that regulate target gene
hsa-mir-133a-3p ; hsa-mir-744-5p ; hsa-mir-346 ; hsa-mir-219b-3p ; hsa-mir-489-5p ; hsa-mir-6854-3p ; hsa-mir-140-3p ; hsa-mir-4257 ; hsa-mir-205-3p ; hsa-mir-329-5p ; hsa-mir-137 ; hsa-mir-133b ; hsa-mir-23a-3p ; hsa-mir-23b-3p ; hsa-mir-23c ; hsa-mir-130a-5p
Nearest miRNA
hsa-mir-1302-11/Upstream/216223; hsa-let-7e/Downstream/786283;
Nearest TSS
ENST00000633603/Upstream/3185; ENST00000566695/Downstream/1067;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1234, chr19-CpG: 136/Downstream/3730
Upstream sequence
gcctcctctgcctcctgggttcaagcgattctcctgcctcagcctcccaagtagctgggactacaggtgcccaccaccacgcccagctcatttttgtatt
Downstream sequence
ttagtacagacgggatttcaccatgtgggctaggccagtctcgaactcctgacctcagatgatccgcccgccttggcctcccaaagtgctgggattgtag
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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