Basic Information
VIS ID
TVIS30008683
Fusion event
HIV-TMA16 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
chr4
Cytoband
q32.2
Reference genome
GRCh37/hg19
Start
164428811/163507659 (Hg38)
End
164428811/163507659 (Hg38)
Orient
-
Location type
Intronic
Target gene
TMA16
miRNAs that regulate target gene
hsa-mir-92a-3p ; hsa-mir-137 ; hsa-mir-4293 ; hsa-mir-3942-3p ; hsa-mir-4469 ; hsa-mir-1245b-3p ; hsa-mir-892c-5p ; hsa-mir-6849-3p ; hsa-mir-7106-3p ; hsa-mir-7977 ; hsa-mir-146a-3p ; hsa-mir-6772-3p ; hsa-mir-5100 ; hsa-mir-1470 ; hsa-mir-4667-3p ; hsa-mir-101-5p
Nearest miRNA
hsa-mir-12113/Upstream/414031; hsa-mir-1305/Downstream/1878583;
Nearest TSS
ENST00000502981/Upstream/12951; ENST00000506214/Downstream/4765;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/12625, chr4-CpG: 36/Downstream/680623
Upstream sequence
tctagtgttcagagaataggttaggggtattgacacaaatttgggagcgatcagcatccatgtgggatttcaagccgtgagactggataggatcagttca
Downstream sequence
cctaaggagtaactgttgacaggaaagagaagagagccaattactgagttcagtggccctctaccatttagaggttaggaaaagaaggagcattccacaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate