Basic Information
VIS ID
TVIS30003542
Fusion event
HIV-TAFA1 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
chr3
Cytoband
p14.1
Reference genome
GRCh37/hg19
Start
68095266/68046116 (Hg38)
End
68095266/68046116 (Hg38)
Orient
-
Location type
Intronic
Target gene
TAFA1
miRNAs that regulate target gene
hsa-mir-1277-5p ; hsa-mir-607 ; hsa-mir-3671 ; hsa-mir-190a-3p ; hsa-mir-205-3p ; hsa-mir-656-3p ; hsa-mir-5011-5p ; hsa-mir-5580-3p
Nearest miRNA
hsa-let-7g/Upstream/820589; hsa-mir-12124/Downstream/1002842;
Nearest TSS
ENST00000440867/Upstream/39886; ENST00000491017/Downstream/200695;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/38092, chr3-CpG: 106/Downstream/885516
Upstream sequence
ATCTTTCCCCTAATAGGTTTACAGCTCCTCTTAGATTTACAGTAATTCCTTCATTTTTCTCTTATCTCCATTATTTATGTAAGCCATATTCCCACTGAGG
Downstream sequence
ATACTTACTTTTGCAACTGCAGTGTTGGATGGAATATAGTGATTCTGGCGGCGGTTTTCAGGATTTGAAACAAATCCATATTTTTATTTAGTTTCTGTAC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate