Basic Information
VIS ID
TVIS30007950
Fusion event
HIV-PANK2 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
chr20
Cytoband
p13
Reference genome
GRCh37/hg19
Start
3883310/3902663 (Hg38)
End
3883310/3902663 (Hg38)
Orient
+
Location type
Intronic
Target gene
PANK2
miRNAs that regulate target gene
hsa-mir-877-3p ; hsa-mir-615-3p ; hsa-mir-497-5p ; hsa-mir-23b-3p ; hsa-mir-10a-5p ; hsa-mir-92a-3p ; hsa-mir-1273e ; hsa-mir-6807-5p ; hsa-mir-506-3p ; hsa-mir-124-3p ; hsa-mir-3202 ; hsa-mir-4533 ; hsa-mir-3116 ; hsa-mir-4722-5p ; hsa-mir-1254 ; hsa-mir-2467-3p ; hsa-mir-6823-3p ; hsa-mir-2114-3p ; hsa-mir-219b-3p ; hsa-mir-605-3p ; hsa-mir-4768-3p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-302f ; hsa-mir-3910 ; hsa-mir-3714 ; hsa-mir-1285-5p ; hsa-mir-1229-3p ; hsa-mir-1304-3p ; hsa-mir-6748-3p
Nearest miRNA
hsa-mir-1292/Upstream/1249821; hsa-mir-1-1/Downstream/14831;
Nearest TSS
ENST00000382410/Upstream/11423; ENST00000464452/Downstream/6027;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/12740, chr20-CpG: 105/Downstream/112263
Upstream sequence
ccaccgcacctggccTAGTTTtttttttttcttttaaagtagagatggggtctggctgtgttgtcctggctgatcttggactcctggcttcaagtgatcc
Downstream sequence
tcccatctcggcctcccaaaatgctaggattacaggtgtgagtcactgcacccagccAGGTTCCATTTTCTCTATATTGACTATATTGACCTTTCTTTCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate