Basic Information
VIS ID
TVIS30006444
Fusion event
HIV-SEC23A 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
chr14
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
39550274/39081070 (Hg38)
End
39550274/39081070 (Hg38)
Orient
+
Location type
Intronic
Target gene
SEC23A
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-193b-3p ; hsa-mir-375 ; hsa-mir-93-5p ; hsa-mir-200c-3p ; hsa-mir-548aw ; hsa-mir-200b-3p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-4777-3p ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-1252-5p ; hsa-mir-4724-5p ; hsa-mir-5700 ; hsa-mir-6800-3p ; hsa-mir-429 ; hsa-mir-4282 ; hsa-mir-519d-3p ; hsa-mir-17-5p ; hsa-mir-20b-5p ; hsa-mir-142-3p ; hsa-mir-4255
Nearest miRNA
hsa-mir-208a/Upstream/2128679; hsa-mir-1185-1/Downstream/8679925;
Nearest TSS
ENST00000550708/Upstream/13859; ENST00000557350/Downstream/7653;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/824738, chr14-CpG: 57/Downstream/21763
Upstream sequence
aaggtggtaggatcacttgagaccaggagtttgagacctgtctgggcaacatggcaagactctgtctctacaaatttaaaaagtagctgggcatagtggc
Downstream sequence
atgggcctatagtcccagctacttgggaggagtctgaggctggaggactgcttgagaccaggagtttgaggttgcagtgctgcagtaagctatgatcacg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate