Basic Information
VIS ID
TVIS30003789
Fusion event
HIV-TRIM41 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
chr5
Cytoband
q35.3
Reference genome
GRCh37/hg19
Start
180654813/181227813 (Hg38)
End
180654813/181227813 (Hg38)
Orient
+
Location type
Intronic
Target gene
TRIM41
miRNAs that regulate target gene
hsa-mir-106b-5p ; hsa-mir-210-5p ; hsa-mir-296-5p ; hsa-mir-3184-5p ; hsa-mir-3660 ; hsa-mir-423-5p ; hsa-mir-4526 ; hsa-mir-628-5p ; hsa-mir-6801-3p ; hsa-mir-6810-3p
Nearest miRNA
hsa-mir-10397/Upstream/5180;
Nearest TSS
ENST00000502646/Upstream/3122; ENST00000510072/Downstream/2872;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/3692, chr5-CpG: 32/Downstream/6369
Upstream sequence
TGTAAAAATTTTTTTTGTTGAATAGGTAATAACACACAAATGATATGTAAATATAGTTCCTGAACAGTTACATGtttgttttgttttttttgagacaggg
Downstream sequence
tctcactctggccaggctagaatgcagtagcatgatcatagctcactgcagccttgaccttctgggttcaggtgatcctgagtagtagctgggactggag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate