Basic Information
VIS ID
TVIS30013467
Fusion event
HIV-FYN 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
chr6
Cytoband
q21
Reference genome
GRCh37/hg19
Start
112183731/111862528 (Hg38)
End
112183731/111862528 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6F
Target gene
FYN
miRNAs that regulate target gene
hsa-mir-128-3p ; hsa-mir-93-3p ; hsa-mir-125a-3p ; hsa-let-7g-3p ; hsa-let-7a-2-3p ; hsa-mir-500a-3p ; hsa-mir-3924 ; hsa-mir-584-5p ; hsa-mir-431-5p ; hsa-mir-6760-3p ; hsa-mir-1208 ; hsa-mir-34c-3p ; hsa-mir-5580-3p ; hsa-mir-106b-5p
Nearest miRNA
hsa-mir-10398/Upstream/5078308; hsa-mir-1202/Downstream/7206519;
Nearest TSS
ENST00000381078/Upstream/4145; ENST00000483439/Downstream/10509;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/378222, chr6-CpG: 116/Downstream/10104
Nearest cancer related gene
FYN(OG, No orient, 0)
Upstream sequence
GTGCCACCAGAAAATACAGAAGCTCAATGTCCAAAAAGAAGCCAGCCTCATAGCGCAGATGCCCAGAAAGCCAGCTGCATGTTCCAGTGCCTTACCCCGG
Downstream sequence
GCCTGTCTAAATGAACATTGCTGAGTATCCACACTGTGAATGACAGTGTGCTACGTGCCTTAGGTGGACAGTCAAAAAGGGGAGCGGCATATGTGGGGCC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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