Basic Information
VIS ID
TVIS30011382
Fusion event
HIV-CNIH4 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
chr1
Cytoband
q42.11
Reference genome
GRCh37/hg19
Start
224552922/224365220 (Hg38)
End
224552922/224365220 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1H
Target gene
CNIH4
miRNAs that regulate target gene
hsa-mir-142-3p ; hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-301b-3p ; hsa-mir-484 ; hsa-mir-424-5p ; hsa-mir-4468 ; hsa-mir-100-3p
Nearest miRNA
hsa-mir-101-1/Upstream/108110; hsa-mir-1182/Downstream/33007;
Nearest TSS
ENST00000473358/Upstream/8299; ENST00000469200/Downstream/11831;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/7698, chr1-CpG: 156/Downstream/250715
Upstream sequence
gttttcctcatttctgaaagtgaggCATGCCAGTTTCTTTCATTAAATATTAACTTCCACTAAAAGAAGTTAACTTTAATTAAAAATCTGTACTCATAGG
Downstream sequence
AAAGGAAAGCTGTTGGTGAATTGAGAACCCTGCCACAAAAGCTGTTGATGCATGAGAACTAGAACATTACACAGTCAACAAATAGCATAGGGAAGGGCAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate