Basic Information
VIS ID
TVIS30008966
Fusion event
HIV-SNRNP48 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
p24.3
Reference genome
GRCh37/hg19
Start
7603090/7602857 (Hg38)
End
7603090/7602857 (Hg38)
Orient
-
Location type
Intronic
Target gene
SNRNP48
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-320a ; hsa-mir-3149 ; hsa-mir-488-3p ; hsa-mir-6715b-3p ; hsa-mir-6730-5p ; hsa-mir-5681a ; hsa-mir-371a-5p ; hsa-mir-199b-5p ; hsa-mir-199a-5p ; hsa-mir-1825 ; hsa-mir-6715a-3p ; hsa-mir-7703 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-376a-2-5p ; hsa-mir-767-5p ; hsa-mir-4793-3p ; hsa-mir-3130-3p ; hsa-mir-766-3p ; hsa-mir-6849-3p ; hsa-mir-1273g-3p ; hsa-mir-936 ; hsa-mir-4494 ; hsa-mir-575 ; hsa-mir-4676-5p ; hsa-mir-508-5p
Nearest miRNA
hsa-mir-3691/Upstream/1433422; hsa-mir-10398/Downstream/2836860;
Nearest TSS
ENST00000381078/Upstream/3184; ENST00000283147/Downstream/123940;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/12164, chr6-CpG: 203/Downstream/123005
Upstream sequence
AATCTTTGTTGATAAGAATTTCCCTTAGGTAATTTTCTAAATCTGTTCTATGAATTTCCACAATTCTTTGGAAATTTTCTGAAAGTGTCTTCAGGGTGGC
Downstream sequence
CACACCTGATTTGTATCTGTTCCATCACTTCTAGATCCACCCTTTAGCAAGCAAAGGCTTTCATAGTATAAGAACCTTATATAAAACAATTGTACAATCT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate