Basic Information
VIS ID
TVIS30008257
Fusion event
HIV-FANCD2 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
chr3
Cytoband
p25.3
Reference genome
GRCh37/hg19
Start
10080484/10038800 (Hg38)
End
10080484/10038800 (Hg38)
Orient
+
Location type
Intronic
Target gene
FANCD2
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-769-5p ; hsa-mir-505-3p ; hsa-mir-331-3p ; hsa-let-7b-5p ; hsa-mir-6870-3p ; hsa-mir-759 ; hsa-mir-34c-3p ; hsa-mir-618
Nearest miRNA
hsa-mir-4790/Upstream/4788545; hsa-let-7g/Downstream/241551;
Nearest TSS
ENST00000440867/Upstream/4093; ENST00000483276/Downstream/6727;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/12219, chr3-CpG: 27/Downstream/69266
Upstream sequence
ctcccaagtagctgggattacaggtacccaccatcgtgcccagctaatttttgtatttttagtagagatggggtttcaccgtgttggccaggctggtctt
Downstream sequence
gaactcctggcctcatgtgatctgcccaccttggcctcccaaagtgctgggattacaggcatgagccactgcatctgacTTATGCTTGCCTTTTTAAGCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate