Basic Information
VIS ID
TVIS30010343
Fusion event
HIV-PPP1R13B 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
chr14
Cytoband
q32.33
Reference genome
GRCh37/hg19
Start
104227107/103760770 (Hg38)
End
104227107/103760770 (Hg38)
Orient
+
Location type
Intronic
Target gene
PPP1R13B
miRNAs that regulate target gene
hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-29c-3p ; hsa-mir-93-3p ; hsa-mir-766-3p ; hsa-mir-421 ; hsa-mir-505-3p ; hsa-mir-138-5p ; hsa-mir-10b-5p
Nearest miRNA
hsa-mir-1185-1/Upstream/1221044; hsa-mir-12121/Downstream/356635;
Nearest TSS
ENST00000550708/Upstream/13373; ENST00000556586/Downstream/79337;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/21778, chr14-CpG: 218/Downstream/86054
Upstream sequence
TGAACTCTGGGTTCCAGGAACACTGTTTCTGCTACTCATGAACCCAGCTCACTCTCCAGCCTCACGGCAACATCACTTGTTTTCCACAATAAACACGGCC
Downstream sequence
CACCCCGCCTCAGGTCTAGCTAGCCTCCCACCCTGACCCCAGCATGAGCAGAGGGAAATAGTTTTTATTATCACTTATCTGATCATATCACTGCCTTCTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate