Basic Information
VIS ID
TVIS30007876
Fusion event
HIV-TRAK2 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
chr2
Cytoband
q33.1
Reference genome
GRCh37/hg19
Start
202286260/201421537 (Hg38)
End
202286260/201421537 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2I
Target gene
TRAK2
miRNAs that regulate target gene
hsa-mir-877-3p ; hsa-mir-193b-3p ; hsa-mir-9-5p ; hsa-mir-218-5p ; hsa-mir-19b-3p ; hsa-mir-19a-3p
Nearest miRNA
hsa-mir-10b/Upstream/12288426; hsa-mir-1244-1/Downstream/5361697;
Nearest TSS
ENST00000437798/Upstream/22027; ENST00000488196/Downstream/12017;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/302551, chr2-CpG: 110/Downstream/29593
Upstream sequence
tgggccagttattgcttcatcatgtgcattgtaggatcttttacccactaagtgccagcagaatcgcttccccagaccctctccagctttatctaaaatg
Downstream sequence
tctccagacattgtcagatgtcccctggggtggggggggcaaaattcatccctggttgagaaccactgataaaacagatgctcaacttcactcacaatta
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate