Basic Information
VIS ID
TVIS30005279
Fusion event
HIV-GTF2B 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
chr1
Cytoband
p22.2
Reference genome
GRCh37/hg19
Start
89324150/88858467 (Hg38)
End
89324150/88858467 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1D
Target gene
GTF2B
miRNAs that regulate target gene
hsa-mir-122-5p ; hsa-mir-484 ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-196a-3p ; hsa-mir-3135a ; hsa-mir-4696 ; hsa-mir-4522 ; hsa-mir-4742-3p ; hsa-mir-766-3p ; hsa-mir-6849-3p ; hsa-mir-6501-3p ; hsa-mir-451b ; hsa-mir-3664-5p ; hsa-mir-4432 ; hsa-mir-508-5p ; hsa-mir-3924 ; hsa-mir-5093 ; hsa-mir-3688-3p ; hsa-mir-410-3p ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-6507-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p
Nearest miRNA
hsa-mir-101-1/Upstream/2500780; hsa-mir-11399/Downstream/4988365;
Nearest TSS
ENST00000473358/Upstream/25538; ENST00000641099/Downstream/29581;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/173432, chr1-CpG: 44/Downstream/32813
Upstream sequence
AATGAAAAATTCTTTGATGTTTATGTATTAATCTGTTGTAAGCAGTGTTACCAAGGAATTGAAAGAAAATACTCAAGCTAAAGGATGCCTCTTAGGCAAC
Downstream sequence
ACAATGTCATGTGTGCATGAAATCCCTGCGATTATGGGCTGTAGCTCAATGAGATAAAATATCTGACCCTGCTATTCCCAGATGCAACCACCACACACTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate