Basic Information
VIS ID
TVIS30011348
Fusion event
HIV-RC3H1 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
q25.1
Reference genome
GRCh37/hg19
Start
173907239/173938101 (Hg38)
End
173907239/173938101 (Hg38)
Orient
+
Location type
UTR3
Fragile sites / regions
FRA1G
Target gene
RC3H1
miRNAs that regulate target gene
hsa-mir-877-5p ; hsa-mir-423-5p ; hsa-mir-218-5p ; hsa-mir-190a-3p ; hsa-mir-5689 ; hsa-mir-5580-3p ; hsa-mir-1277-5p ; hsa-mir-4422 ; hsa-mir-548e-5p ; hsa-mir-3924 ; hsa-mir-410-3p ; hsa-mir-369-3p ; hsa-mir-374b-5p ; hsa-mir-374a-5p ; hsa-mir-5011-5p ; hsa-mir-5692b ; hsa-mir-5692c ; hsa-mir-513c-3p ; hsa-mir-3606-3p ; hsa-mir-513a-3p ; hsa-mir-1305 ; hsa-mir-627-3p ; hsa-mir-550b-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-1247-3p ; hsa-mir-3192-5p ; hsa-mir-3689d ; hsa-mir-377-5p ; hsa-mir-6086 ; hsa-mir-6134 ; hsa-mir-6799-5p ; hsa-mir-6851-5p ; hsa-mir-6880-5p ; hsa-mir-7847-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1793457; hsa-mir-1182/Downstream/2030269;
Nearest TSS
ENST00000473358/Upstream/20723; ENST00000424181/Downstream/3348;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/69322, chr1-CpG: 93/Downstream/83566
Upstream sequence
ACTTCAAAATTGGTAATTCTATTTGAAAAGTTGAAAATAAAAACAAGAAATAAAACCCTCCCAAACAAACAAAAAGCTTCAATGTCAAGAAAAATATACG
Downstream sequence
TATCCAATGAAGCTAGTGATCTAGAAAGGGATAAAGAATTCCAAATAACAGCTCTGGGAAAAGTTGGTTTGCTGCACATTTTCTAATAACTCAGTCTAGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate