Basic Information
VIS ID
TVIS30009772
Fusion event
HIV-FANCC 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
chr9
Cytoband
q22.32
Reference genome
GRCh37/hg19
Start
97895581/95133299 (Hg38)
End
97895581/95133299 (Hg38)
Orient
+
Location type
Intronic
Target gene
FANCC
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-15b-5p ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-5192 ; hsa-mir-6754-5p ; hsa-mir-4441 ; hsa-mir-4270 ; hsa-mir-211-3p ; hsa-mir-3613-3p ; hsa-mir-6760-5p ; hsa-mir-7844-5p ; hsa-mir-5007-5p ; 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 ; hsa-mir-587 ; hsa-mir-302c-5p ; hsa-mir-873-5p ; hsa-mir-5698 ; hsa-mir-744-3p ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-4423-5p ; hsa-mir-6501-5p ; hsa-mir-143-5p ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6499-3p ; hsa-mir-1273f ; hsa-mir-367-5p ; hsa-mir-1267 ; hsa-mir-6812-3p ; hsa-mir-6733-3p
Nearest miRNA
hsa-let-7a-1/Upstream/47205; hsa-mir-12126/Downstream/2230255;
Nearest TSS
ENST00000422679/Upstream/5879; ENST00000605700/Downstream/2074;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/47056, chr9-CpG: 25/Downstream/159114
Upstream sequence
CTGCCTGGCTTTCTGGCACTGCAGGCCCAGGATGCTGAGGAGAACAGCCCACACCAATCAGGGGCTTCCAGCCATCGTCTGTATTGTAATTACGTCCTTG
Downstream sequence
AACCATGAGGCACAGAGAGGTCACATCCTGCCAATGCCACAATAAATTAAACCAAATAACACCCTCTAGAATCCCCCTTTAGCCATAATGGAAGCTCTGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate