Basic Information
VIS ID
TVIS30009387
Fusion event
HIV-SRPK2 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
q22.3
Reference genome
GRCh37/hg19
Start
104979771/105339324 (Hg38)
End
104979771/105339324 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA7F
Target gene
SRPK2
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-181a-5p ; hsa-mir-21-5p ; hsa-mir-511-5p ; hsa-mir-7977 ; hsa-mir-6740-3p ; hsa-mir-6849-3p ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-4282 ; hsa-mir-548c-3p
Nearest miRNA
hsa-mir-10525/Upstream/2867793; hsa-mir-10399/Downstream/9314021;
Nearest TSS
ENST00000635602/Upstream/35047; ENST00000482041/Downstream/49570;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/37793, chr7-CpG: 182/Downstream/48489
Upstream sequence
AAAGTTCTATGCCCAAAATACATGCCCTCAGGAATTTTGAATAGAGGTACAAAAAGCCATTCCTCCTCTAGTTAAATAATCCAAACTAGTTTTGGGGTTC
Downstream sequence
TTAAATCTGTTTATTTCAATCACCtcattcattccataagcacttattaattatctgtgatccagggtctatgaaccaaacatagaagaatataatgatt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate