Basic Information
VIS ID
TVIS30011732
Fusion event
HIV-PCBP2 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
q13.13
Reference genome
GRCh37/hg19
Start
53862876/53469092 (Hg38)
End
53862876/53469092 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
PCBP2
miRNAs that regulate target gene
hsa-mir-615-3p ; hsa-mir-320a ; hsa-mir-125b-5p ; hsa-mir-222-3p ; hsa-mir-100-5p ; hsa-mir-92a-3p ; hsa-let-7e-5p ; hsa-let-7b-5p ; hsa-mir-34a-5p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106a-5p ; hsa-mir-142-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-595 ; hsa-mir-1255a ; hsa-mir-1255b-5p ; hsa-mir-3609 ; hsa-mir-3681-5p ; hsa-mir-3682-3p ; hsa-mir-3691-5p ; hsa-mir-548ah-5p ; hsa-mir-4738-3p ; hsa-mir-4796-3p ; hsa-mir-5590-3p ; hsa-mir-6744-5p ; hsa-mir-6849-5p ; hsa-mir-218-5p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-4787-3p ; hsa-mir-5580-3p ; hsa-mir-5011-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/412080; hsa-let-7i/Downstream/522646;
Nearest TSS
ENST00000382841/Upstream/624; ENST00000546889/Downstream/13495;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/16270, chr12-CpG: 34/Downstream/23686
Upstream sequence
cccgggttcaaccaattctcctgcctcaacctcctgagtagctgggattacaggcatgtgccaccatgcctggctaattttgtatttttagtagagatgg
Downstream sequence
agtttctccatgttggtcaggctggtctcaaactcccgagctcaggtgatccactcaccttggcctcccaaagtgctgggattacaggtctgagtcaccg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate