Basic Information
VIS ID
TVIS30006143
Fusion event
HIV-PRKAG1 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
49404489/49010706 (Hg38)
End
49404489/49010706 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
PRKAG1
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-1-3p ; hsa-mir-877-3p ; hsa-mir-125b-5p ; hsa-mir-873-5p ; hsa-mir-218-5p ; hsa-mir-4776-3p ; hsa-mir-7152-5p ; hsa-mir-8061 ; hsa-mir-4760-5p ; hsa-mir-4715-3p ; hsa-mir-3064-3p ; hsa-mir-4709-3p ; hsa-mir-5696 ; hsa-mir-376a-5p ; hsa-mir-616-3p ; hsa-mir-145-3p ; hsa-mir-215-3p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-6748-3p ; hsa-mir-4729 ; hsa-mir-6749-3p ; hsa-mir-4749-3p ; hsa-mir-5193 ; hsa-mir-4667-3p ; hsa-mir-6887-3p ; hsa-mir-4286 ; hsa-mir-186-3p ; hsa-mir-3914 ; hsa-mir-6769a-3p ; hsa-mir-6768-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/238669; hsa-let-7i/Downstream/1223436;
Nearest TSS
ENST00000382841/Upstream/4871; ENST00000553174/Downstream/7709;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/11128, chr12-CpG: 46/Downstream/7810
Upstream sequence
tgggatctgactgtttcttagaccttcaatgcttcttggctttcctcactgctagttataattcagttttctcaggtctaagtcattcatcactcttttg
Downstream sequence
tctgcttttcagcttccaaaaattcattgctattatctcctctcctgttttccctatggtgtgtttgtgtctttttctttaaaaaaattcctttatggtg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate