Basic Information
VIS ID
TVIS30006457
Fusion event
HIV-SAMD4A 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
chr14
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
55081508/54614790 (Hg38)
End
55081508/54614790 (Hg38)
Orient
+
Location type
Intronic
Target gene
SAMD4A
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-548an ; hsa-mir-4673 ; hsa-mir-4645-5p ; hsa-mir-6715b-5p ; hsa-mir-4269 ; hsa-mir-1911-3p ; hsa-mir-8485 ; hsa-mir-377-3p ; hsa-mir-1305 ; hsa-mir-6505-3p ; hsa-mir-617 ; hsa-mir-345-5p ; hsa-mir-4680-3p ; hsa-mir-5187-3p ; hsa-mir-4427 ; hsa-mir-301b-5p ; hsa-mir-301a-5p ; hsa-mir-4714-5p ; hsa-mir-556-3p ; hsa-mir-3140-3p ; hsa-mir-124-3p ; hsa-mir-6071 ; hsa-mir-6828-3p ; hsa-mir-6852-3p ; hsa-mir-3909 ; hsa-mir-4726-5p ; hsa-mir-4640-5p ; hsa-mir-6815-3p ; hsa-mir-6876-3p ; hsa-mir-626 ; hsa-mir-3692-5p ; hsa-mir-93-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6837-5p ; hsa-mir-4685-5p ; hsa-mir-3918 ; hsa-mir-3158-3p ; hsa-mir-6895-5p ; hsa-mir-379-3p ; hsa-mir-411-3p ; hsa-mir-6870-3p
Nearest miRNA
hsa-mir-208a/Upstream/666306; hsa-mir-1185-1/Downstream/263323;
Nearest TSS
ENST00000550708/Upstream/47158; ENST00000554587/Downstream/37893;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/46678, chr14-CpG: 143/Downstream/287039
Upstream sequence
CCCTTTTTTGCCTCAGGAATGCAAAGCCTTACAACAAAAATTTCATTGATTCTCAGTTATTTATAAAATAAAGGCCAAAGTACCCACTTCCTGAGAGGAA
Downstream sequence
GACTGGAGAAACCCACTGTTTTCTCCCGATTTAGAGAGAGACCTGTGACATGGGAAGTGGCTCTGTGATTGTCTAATGAAGTCCTCAAGTCAGAGGGGAG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate