Basic Information
VIS ID
TVIS30013425
Fusion event
HIV-SRPK1 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
chr6
Cytoband
p21.31
Reference genome
GRCh37/hg19
Start
35862843/35895066 (Hg38)
End
35862843/35895066 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
SRPK1
miRNAs that regulate target gene
hsa-mir-93-5p ; hsa-mir-16-5p ; hsa-mir-652-3p ; hsa-mir-186-5p ; hsa-mir-99a-5p ; hsa-mir-95-5p ; hsa-mir-3926 ; hsa-mir-3922-5p ; hsa-mir-4753-5p ; hsa-mir-7158-5p ; hsa-mir-6881-5p ; hsa-mir-6890-5p ; hsa-mir-7851-3p ; hsa-mir-619-3p ; hsa-mir-4802-3p ; hsa-mir-942-3p ; hsa-mir-6796-3p ; hsa-mir-99b-3p ; hsa-mir-99a-3p ; hsa-mir-548m ; hsa-mir-376a-5p ; hsa-mir-376a-2-5p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-3973 ; hsa-mir-1252-3p ; hsa-mir-6077 ; hsa-mir-7-5p ; hsa-mir-6882-3p ; hsa-mir-139-5p ; hsa-mir-22-3p ; hsa-mir-3156-5p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p
Nearest miRNA
hsa-mir-1236/Upstream/230277; hsa-mir-10398/Downstream/727370;
Nearest TSS
ENST00000381078/Upstream/24076; ENST00000622903/Downstream/653;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/107929, chr6-CpG: 82/Downstream/25541
Upstream sequence
atagagaaggcctgaaatgcatttaatctgacctagagccagagaccagagagctctgagagattccggggaaaaaaacAAAGACAAGAAAGTATGCTTG
Downstream sequence
AGACATACTTTCTGGAGGAATCTAACAATATGATAAAAAAGAGGTAACACAAGGGAGAAAAACATAATTACGAATTCCAAGAAACAAACAAAATCTAAAC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate