Basic Information
VIS ID
TVIS30006142
Fusion event
HIV-ARF3 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
chr12
Cytoband
q13.12
Reference genome
GRCh37/hg19
Start
49347382/48953599 (Hg38)
End
49347382/48953599 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
ARF3
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-320a ; hsa-mir-125b-5p ; hsa-mir-10a-5p ; hsa-mir-30c-5p ; hsa-mir-6834-5p ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-6875-5p ; hsa-mir-3126-5p ; hsa-mir-34c-3p ; hsa-mir-6760-5p ; hsa-mir-5195-5p ; hsa-mir-582-3p ; hsa-mir-183-5p ; hsa-mir-377-3p ; hsa-mir-3941 ; hsa-mir-342-3p ; hsa-mir-4650-5p ; hsa-mir-6768-5p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-4789-5p ; hsa-mir-4477a ; hsa-mir-4424 ; hsa-mir-6770-5p ; hsa-mir-3976 ; hsa-mir-3123 ; hsa-mir-3925-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/181562; hsa-let-7i/Downstream/1280543;
Nearest TSS
ENST00000382841/Upstream/13936; ENST00000613114/Downstream/2841;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/28092, chr12-CpG: 52/Downstream/3457
Upstream sequence
TCACGCTTGACACTCCTGTGCATAAGCTAATAAAGGAAGGATTATGCCAGGCTTTCAGCAGTAATGGGAGAACTAAAAGGTACCAAGAGACCTGCCACAC
Downstream sequence
CCAGTCATCTCAACTTTCTTCAGGAATATGGTAATAATGGTGGATCTCTAACATTCTGAGCCATTTCCTTTCTGGTCCACATGGTGTGGCAGATCCTTTG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate