Basic Information
VIS ID
TVIS30009756
Fusion event
HIV-HNRNPK 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
chr9
Cytoband
q21.32
Reference genome
GRCh37/hg19
Start
86592972/83978057 (Hg38)
End
86592972/83978057 (Hg38)
Orient
+
Location type
Intronic
Target gene
HNRNPK
miRNAs that regulate target gene
hsa-mir-450a-5p ; hsa-mir-21-5p ; hsa-mir-877-3p ; hsa-mir-106b-3p ; hsa-mir-615-3p ; hsa-mir-503-5p ; hsa-mir-484 ; hsa-mir-328-3p ; hsa-mir-125b-5p ; hsa-mir-23b-3p ; hsa-mir-15b-5p ; hsa-mir-30c-5p ; hsa-mir-1260b ; hsa-mir-1229-3p ; hsa-mir-6511a-3p ; hsa-mir-6511b-3p ; hsa-mir-6784-3p ; hsa-mir-6862-3p ; hsa-mir-500b-3p ; hsa-mir-590-3p ; hsa-mir-5571-5p ; hsa-mir-649
Nearest miRNA
hsa-mir-101-2/Upstream/8200; hsa-let-7a-1/Downstream/4767779;
Nearest TSS
ENST00000422679/Upstream/2287; ENST00000445877/Downstream/395;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/20945, chr9-CpG: 177/Downstream/1354
Upstream sequence
CTGCCACAAAATACTTCAAAGGATTTGAAATCCCAAAATGCAAGAAAAATTCTTTATATGCAAATCAGTTACTTCTACTTCATAAATAAAAGCTAAGATG
Downstream sequence
TAACTACTGATAATCGCAGAATTACATAAACAGTAATACCAAAAATTCACCACACACTCCTAAGGCAATAATTAACAGAAAAAGGCAATTTATTAACAGG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate