Basic Information
VIS ID
TVIS30006409
Fusion event
HIV-TUBGCP3 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
chr13
Cytoband
q34
Reference genome
GRCh37/hg19
Start
113175583/112521269 (Hg38)
End
113175583/112521269 (Hg38)
Orient
-
Location type
Intronic
Target gene
TUBGCP3
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-18a-3p ; hsa-let-7b-5p ; hsa-mir-668-3p ; hsa-mir-483-3p ; hsa-mir-4699-3p
Nearest miRNA
hsa-mir-1267/Upstream/2180240; hsa-mir-4502/Downstream/741651;
Nearest TSS
ENST00000623511/Upstream/31446; ENST00000623100/Downstream/24934;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/35256, chr13-CpG: 28/Downstream/26123
Upstream sequence
TTTAAAAGCTCATCACCACTCATACTTCAAACAGGTGTTGACCTCATCACAACCAGCATTTACTGTACTAGTGAACTTTCTTTTCTTACAAATGTGTTAG
Downstream sequence
CAGGCATCAGCTATGACTAAGGCATGAGCATGTCACAAGCCAGCTATGGCTGTGTACGCCTCAAAAAGCCACATGAGTTTTCACACGGGAGACTGGCTTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate