Basic Information
VIS ID
TVIS30006275
Fusion event
HIV-PSMD9 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
q24.31
Reference genome
GRCh37/hg19
Start
122339497/121901591 (Hg38)
End
122339497/121901591 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
PSMD9
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-186-5p ; hsa-mir-148a-3p ; hsa-mir-19b-3p ; hsa-let-7b-5p ; hsa-mir-1273g-3p ; hsa-mir-1273a ; hsa-mir-6736-5p ; hsa-mir-4701-3p ; hsa-mir-1262 ; hsa-mir-7703 ; hsa-mir-6512-3p ; hsa-mir-6720-5p ; hsa-mir-4504 ; hsa-mir-661 ; hsa-mir-6776-5p ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-6742-3p ; hsa-mir-6849-3p ; hsa-mir-508-5p ; hsa-mir-21-5p ; hsa-mir-199a-5p
Nearest miRNA
hsa-let-7i/Upstream/457239; hsa-mir-3612/Downstream/794316;
Nearest TSS
ENST00000382841/Upstream/4320; ENST00000544254/Downstream/457;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/12453, chr12-CpG: 47/Downstream/16818
Upstream sequence
gcacatgtaaccatgcctggttaattttttatttccttttttttttagagatgggttctcactatgttgcccaggctggtcttgaactcctggcctcaag
Downstream sequence
cgatccttcttcctcggcctcccaaagtgctagaattacaggcatgagctgtcatgcctggccCTTCATTCCttcttttttttttttttttttttttttt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate