Basic Information
VIS ID
TVIS30002140
Fusion event
HIV-FREM2 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
chr13
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
39286835/38712698 (Hg38)
End
39286835/38712698 (Hg38)
Orient
+
Location type
Intronic
Target gene
FREM2
miRNAs that regulate target gene
hsa-mir-29c-3p ; hsa-mir-615-3p ; hsa-mir-574-5p ; hsa-mir-1277-5p ; hsa-mir-297 ; hsa-mir-493-5p ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-5580-3p ; hsa-mir-6888-3p ; hsa-mir-6873-3p ; hsa-mir-3120-5p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-3613-3p ; hsa-mir-3675-3p ; hsa-mir-3664-5p
Nearest miRNA
hsa-mir-2276/Upstream/14550194; hsa-mir-1267/Downstream/951336;
Nearest TSS
ENST00000623511/Upstream/25569; ENST00000482551/Downstream/108998;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/24536, chr13-CpG: 49/Downstream/324853
Upstream sequence
ctttctttctttctctctttctctctgtctcttactctctctttctctctctcacacacacacacacacacacacacaaacacacacacacacaagtaca
Downstream sequence
cacacaGACTTTTCCTGTGAGATTCCAGTGTATTACTATTTGGAAACCAGTTTCATACTTTAGTAAGTTAATAAAATTTTCCTGGTACTAGTGCCAAAAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate