Basic Information
VIS ID
TVIS30007708
Fusion event
HIV-GCFC2 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
chr2
Cytoband
p12
Reference genome
GRCh37/hg19
Start
75920982/75693856 (Hg38)
End
75920982/75693856 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
GCFC2
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-155-5p ; hsa-mir-10a-3p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-1273e ; hsa-mir-6807-5p ; hsa-mir-6778-5p ; hsa-mir-1233-5p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-2467-3p ; hsa-mir-6894-5p ; hsa-mir-1233-3p ; hsa-mir-1225-3p ; hsa-mir-605-3p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-3714 ; hsa-mir-1252-5p ; hsa-mir-150-3p ; hsa-mir-4762-3p ; hsa-mir-514a-3p ; hsa-mir-514b-3p ; hsa-mir-532-5p ; hsa-mir-5589-3p ; hsa-mir-5683
Nearest miRNA
hsa-mir-1285-2/Upstream/602942; hsa-mir-10b/Downstream/3955438;
Nearest TSS
ENST00000437798/Upstream/5964; ENST00000604464/Downstream/623;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/46562, chr2-CpG: 64/Downstream/16675
Upstream sequence
CTAAGAACCACAAAGATAAAAGGGCAAAGACAAGAAACAAATAATTCACAAGCAGAAAACCAAAGAGTTTGCTTGAGATCAAAATATGATATGTAAAAAC
Downstream sequence
AAAATCCATTTATTCCTAATCTAGTAAACTAATAaaactggcacaatctttctggaggtcaattttgtaatgtttcataagccttaaaaatatttagact
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate