Basic Information
VIS ID
TVIS30007378
Fusion event
HIV-C1GALT1 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
chr19
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
3540499/3540501 (Hg38)
End
3540499/3540501 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
C1GALT1
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-375 ; hsa-mir-98-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-4753-3p ; hsa-mir-196a-3p ; hsa-mir-627-3p ; hsa-mir-130b-5p ; hsa-mir-4742-5p ; hsa-mir-8063 ; hsa-mir-3065-5p ; hsa-mir-216b-5p ; hsa-mir-548s ; hsa-mir-4684-5p ; hsa-mir-3926 ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-339-5p ; hsa-mir-548al ; hsa-mir-4445-3p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-6732-3p ; hsa-mir-548as-3p
Nearest miRNA
hsa-mir-1227/Upstream/909708; hsa-let-7e/Downstream/420913;
Nearest TSS
ENST00000633603/Upstream/458; ENST00000589360/Downstream/2881;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/7833, chr19-CpG: 20/Downstream/5645
Upstream sequence
catgcgctaccatgcccagctaatttttgtatttttagtagagacggggtttcaccatgttggccaggatggtctcgatctcctgacctcatgatctgcc
Downstream sequence
ctccttggcctcccaaagtgctgggattacaggcgtgaggcaccgcgcctagcTgtgagaccccatctctataaaaaatttaaaaatcagccaggcagcc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate