Basic Information
VIS ID
TVIS30002003
Fusion event
HIV-NECAP1 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
chr12
Cytoband
p13.31
Reference genome
GRCh37/hg19
Start
8236306/8083710 (Hg38)
End
8236306/8083710 (Hg38)
Orient
+
Location type
Intronic
Target gene
NECAP1
miRNAs that regulate target gene
hsa-mir-1254 ; hsa-mir-423-5p ; hsa-mir-1207-5p ; hsa-mir-2054 ; hsa-mir-4310 ; hsa-mir-4763-3p ; hsa-mir-5197-5p ; hsa-mir-6132 ; hsa-mir-6836-5p ; hsa-mir-7150 ; hsa-mir-7157-5p ; hsa-mir-32-5p ; hsa-mir-92a-3p ; hsa-mir-335-3p ; hsa-mir-92b-3p ; hsa-mir-5096 ; hsa-mir-513a-5p ; hsa-mir-4736 ; hsa-mir-27b-3p ; hsa-mir-27a-3p
Nearest miRNA
hsa-mir-141/Upstream/1119519; hsa-let-7i/Downstream/1155757;
Nearest TSS
ENST00000382841/Upstream/923; ENST00000638334/Downstream/5180;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/1286, chr12-CpG: 42/Downstream/96482
Upstream sequence
gtagagatggggtttcaccaagttggccaggctggtcttgaactcctgaccttgtgatctgcccaccttggcctcccatagtactgggattacaggcgtg
Downstream sequence
acaccacgcccagccGTCGtttttttttttttttttttttgttagagaggcagggtctcgttctatcatccaggctggagtgcaagtggtgcaatcacag
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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