Basic Information
VIS ID
TVIS30011267
Fusion event
HIV-PATJ 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
chr1
Cytoband
p31.3
Reference genome
GRCh37/hg19
Start
62278645/61812973 (Hg38)
End
62278645/61812973 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1L
Target gene
PATJ
miRNAs that regulate target gene
hsa-mir-548b-3p ; hsa-mir-15b-5p ; hsa-mir-155-5p ; hsa-mir-665 ; hsa-mir-6771-5p ; hsa-mir-7160-5p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-1827 ; hsa-mir-4649-3p ; hsa-mir-6746-5p ; hsa-mir-4768-3p ; hsa-mir-5690 ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-578 ; hsa-mir-4639-5p ; hsa-mir-6867-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-6845-3p ; hsa-mir-4685-3p ; hsa-mir-7113-3p ; hsa-mir-4287 ; hsa-mir-4469 ; hsa-mir-6832-3p ; hsa-mir-7977 ; hsa-mir-490-3p
Nearest miRNA
hsa-mir-12136/Upstream/2079677; hsa-mir-101-1/Downstream/33102;
Nearest TSS
ENST00000473358/Upstream/7463; ENST00000493967/Downstream/51418;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/69827, chr1-CpG: 33/Downstream/381910
Upstream sequence
CCCGGGTAATCCACgaaagaccctggggtgtttaccagtcctcttatcctggtggaacctgaactctaatcttctctccttagtagtgtggactgctgaa
Downstream sequence
atacttgctttgcttttccagggtttcctgattagctttttagcctcctgtgtcatattactttagaactcaggatatgtcctttcagggaagtcctgcc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate