Basic Information
VIS ID
TVIS30008605
Fusion event
HIV-SEC31A 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
chr4
Cytoband
q21.22
Reference genome
GRCh37/hg19
Start
83781874/82860721 (Hg38)
End
83781874/82860721 (Hg38)
Orient
-
Location type
Intronic
Target gene
SEC31A
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-98-5p ; hsa-mir-1909-5p ; hsa-mir-331-3p ; hsa-mir-378a-3p ; hsa-mir-26a-5p ; hsa-mir-378c ; hsa-mir-218-5p ; hsa-mir-127-3p ; hsa-mir-653-3p ; hsa-mir-196a-3p ; hsa-mir-3128 ; hsa-mir-4733-3p ; hsa-mir-3065-5p ; hsa-mir-29c-3p ; hsa-mir-29b-3p ; hsa-mir-29a-3p ; hsa-mir-4422 ; hsa-mir-6835-3p
Nearest miRNA
hsa-mir-12113/Upstream/107291; hsa-mir-1243/Downstream/2861747;
Nearest TSS
ENST00000502981/Upstream/2723; ENST00000514440/Downstream/1125;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/61633, chr4-CpG: 80/Downstream/30084
Upstream sequence
gccaccacgcctggctaattttttatttttttttttagagatagggtctcactatgttgtccaggctagtcttgaactcatagcctcaagtgatcctccc
Downstream sequence
accttggcctcccaaagtgctgggattacaggcataagcaaacatcatgcctggccTAGTTCAAAGTTTTAGTAAAGATTTTATCCATATCCTTTATTCC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate