Basic Information
VIS ID
TVIS30003997
Fusion event
HIV-CROT 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
chr7
Cytoband
q21.12
Reference genome
GRCh37/hg19
Start
87000301/87370985 (Hg38)
End
87000301/87370985 (Hg38)
Orient
-
Location type
Intronic
Target gene
CROT
miRNAs that regulate target gene
hsa-mir-33a-5p ; hsa-mir-106b-5p ; hsa-mir-221-3p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p
Nearest miRNA
hsa-mir-10525/Upstream/11455716; hsa-mir-10399/Downstream/4833030;
Nearest TSS
ENST00000635602/Upstream/9542; ENST00000469785/Downstream/4250;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/25213, chr7-CpG: 69/Downstream/104422
Nearest cancer related gene
CROT(OG, No orient, 0)
Upstream sequence
ttcaatagataatgccagttttccaaagtagttatgtctacTAGTGTGTGAATGttgtaggagttccttacattctgggtaagagttcttacttggttgt
Downstream sequence
gtgtgttgcaatacacagagtagaagatgtttataattgatcttttgttctattaaacacatcttcctgatgaacagaagttcttaattgaatgaactcc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate