Basic Information
VIS ID
TVIS30001798
Fusion event
HIV-SLK 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
chr10
Cytoband
q24.33
Reference genome
GRCh37/hg19
Start
105742041/103982283 (Hg38)
End
105742041/103982283 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
SLK
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-615-3p ; hsa-mir-484 ; hsa-let-7c-5p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20b-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-mir-107/Upstream/587882; hsa-mir-202/Downstream/65806;
Nearest TSS
ENST00000439456/Upstream/15082; ENST00000474260/Downstream/25915;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/14615, chr10-CpG: 46/Downstream/139408
Upstream sequence
TTGAAATTGTCTTTTTGTGTTCTGTTTTTCATCTTTTCCAACTATGCAATCTATGCACATTTCCTCAGCTTCTTTATTACACAGTTGTGTTTGTTTCTGC
Downstream sequence
ATATTCATGCTGCTCAGAGTCAATAAGTCCTTGCAATAAGCAGGAAAACTGTGTGATCTGAGAATTGGTAAAACATTTTGGAAACTGCAGACTTAGCCAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate