Basic Information
VIS ID
TVIS30007868
Fusion event
HIV-GTF3C3 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
chr2
Cytoband
q33.1
Reference genome
GRCh37/hg19
Start
197634495/196769771 (Hg38)
End
197634495/196769771 (Hg38)
Orient
-
Location type
Intronic
Target gene
GTF3C3
miRNAs that regulate target gene
hsa-mir-34a-5p ; hsa-mir-16-5p ; hsa-mir-484 ; hsa-mir-30c-5p ; hsa-mir-4446-5p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-3162-5p ; hsa-mir-29b-1-5p ; hsa-mir-1207-3p ; hsa-mir-4756-5p ; hsa-mir-4739 ; hsa-mir-1321 ; hsa-mir-6760-5p
Nearest miRNA
hsa-mir-10b/Upstream/7636660; hsa-mir-1244-1/Downstream/10013463;
Nearest TSS
ENST00000437798/Upstream/2767; ENST00000449346/Downstream/6674;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/129937, chr2-CpG: 31/Downstream/29717
Upstream sequence
tctgcctgtgtctttgtccctaaagatctggctgtgtacctttactatatcgctgtaataagtcttaatcatgagtataattatatgctgagtgctgaac
Downstream sequence
actggggtaagtgttggggacccccgtcaTGTGTACTGAGAGCATTGTGTATTACTTTTGAAGCAGGATTTTTAAAAAAAGTATTAAGTATATTCATTTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate