Basic Information
VIS ID
TVIS30013684
Fusion event
HIV-FAM49B 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
chr8
Cytoband
q24.21
Reference genome
GRCh37/hg19
Start
130855347/129843101 (Hg38)
End
130855347/129843101 (Hg38)
Orient
+
Location type
Intronic
Target gene
FAM49B
miRNAs that regulate target gene
hsa-mir-590-3p ; hsa-mir-128-3p ; hsa-mir-27a-3p ; hsa-mir-26b-5p ; hsa-let-7b-5p ; hsa-mir-769-5p ; hsa-mir-3617-3p ; hsa-mir-526b-5p ; hsa-mir-580-3p ; hsa-mir-4291 ; hsa-mir-4764-5p ; hsa-mir-1253 ; hsa-mir-6770-5p ; hsa-mir-761 ; hsa-mir-3619-5p ; hsa-mir-214-3p ; hsa-mir-922 ; hsa-mir-6757-5p ; hsa-mir-6510-5p
Nearest miRNA
hsa-mir-1204/Upstream/358959; hsa-mir-10400/Downstream/165233;
Nearest TSS
ENST00000518652/Upstream/10800; ENST00000521014/Downstream/4216;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/1993123, chr8-CpG: 122/Downstream/96025
Upstream sequence
TCACAAAGAGTGATTATTATAAAGATTCACAACAGTATTCCCTTAAAcagtaaaaatccactaagcaagcttactatgtctcaggcactgttcaaggagc
Downstream sequence
ttacaacctagcagACGGAGAAAGATAATGATACACTAATATTAGTGACAgggtaaagcctagcagcaaaggagagaagtataacaagaagaggctacat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate