Basic Information
VIS ID
TVIS30006309
Fusion event
HIV-SLC46A3 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
q12.3
Reference genome
GRCh37/hg19
Start
29286813/28712676 (Hg38)
End
29286813/28712676 (Hg38)
Orient
-
Location type
Intronic
Target gene
SLC46A3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-3681-3p ; hsa-mir-216a-3p ; hsa-mir-128-3p ; hsa-mir-6826-5p ; hsa-mir-410-3p ; hsa-mir-144-3p ; hsa-mir-224-5p ; hsa-mir-6796-3p ; hsa-mir-99b-3p ; hsa-mir-99a-3p
Nearest miRNA
hsa-mir-2276/Upstream/4550172; hsa-mir-1267/Downstream/10951358;
Nearest TSS
ENST00000623511/Upstream/8119; ENST00000255289/Downstream/6165;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/53300, chr13-CpG: 69/Downstream/5857
Upstream sequence
TAAATAGAGGGCTTTAGATTAAAGTTTCTCCCCCAGTAGACTAAATTCATTTTATATGAATATCAAATACATAGTTAGTTCTAAAGCTACACTTGGAACT
Downstream sequence
CACCTAAAAACATCATCAGTGTTGTACTGGCAAACGCGGTCATAGCCATTCCTGTCATCGTGGTAAAAATCCCAATGAAGGCCATATGAATATCTTCCAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate