Basic Information
VIS ID
TVIS30013354
Fusion event
HIV-SPINK5 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
chr5
Cytoband
q32
Reference genome
GRCh37/hg19
Start
147465320/148085757 (Hg38)
End
147465320/148085757 (Hg38)
Orient
-
Location type
Intronic
Target gene
SPINK5
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-10397/Upstream/4405786; hsa-mir-103a-1/Downstream/976556;
Nearest TSS
ENST00000502646/Upstream/21754; ENST00000481286/Downstream/4896;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/575592, chr5-CpG: 33/Downstream/297963
Upstream sequence
TTTACCATCAGGTTTGTTCCTAAGTGTATGTCACATTATTAGAATAGAGATTTGGGCTTTCTCCTGCCGTACCTAAAAGATGTTTAGTTTACTTGGCTTG
Downstream sequence
TCAGTAGAGAAAACATTGAAAATAACAACAACAACAACAATAAATGGTTCtgtgtcaggcactgttccaagtgctatacatgaattaacatatgtaaatc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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