RRBP1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005384
Fusion event
HBV-RRBP1 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
2649
Orient
-
Integrated sequence
ATTCATTTACAGGAGGACATTATTAATAGATGTCAACAATATGTGGGCCCTCTTACAGTTAATGAAAAAAGGAGATTAAAATTAATTATGCCTGCTAGGT| |TCTATCCTAACCTTACCAAATATTTGCCCTTGGATAAAGGCATTAAACCTTATTATCCTGAACATGCAGTTAATCATTACTTCAAAACTAGGCATTATTT
Host Sequence
Chromosome
chr20
Cytoband
p12.1
Reference genome
GRCh37/hg19
Start
17603212/17622567 (Hg38)
End
17603212/17622567 (Hg38)
Orient
+
Location type
Intron
Target gene
RRBP1
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-335-5p ; hsa-mir-34a-5p ; hsa-mir-331-3p ; hsa-mir-92a-3p ; hsa-let-7b-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/6972872; hsa-mir-1-1/Downstream/848048;
Nearest TSS
ENST00000382410/Upstream/2750; ENST00000427254/Downstream/763;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/7729, chr20-CpG: 231/Downstream/58309
Upstream sequence
AGGAAGGGGCAACCCAGAGAGGCTCATCTCCAGCCACCCTGGAGAGGGTGGATCAGCATTCCCCCTCTGCAGAGGGAGAAGCCCACTCAGAGGAGACAGG
Downstream sequence
GACTTTGCACCCTGTGCCATGCTGGGTCGGACACCCCCTCAGTCCTCAACGAAGAGCCAGCGGCCCCCATTCAAAGCACAACAAAGATAAGGAAACAAAA
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).
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