RB1CC1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005539
Fusion event
HBV-RB1CC1 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
2609
Orient
-
Integrated sequence
TGTCTTTAATCCTGAGTGGCAAACTCCCTCCTTTCCTAACATTCATTTACAGGAGGACATTATTAATAGATGTCAACAATATGTGGGCCCTCTTACAGTT| |AATGAAAAAAGGAGATTAAAATTAATTATGCCTGCTAGGTTCTATCCTAACCTTACCAAATATTTGCCCTTGGATAAAGGCATTAAACCTTATTATCCTG
Host Sequence
Chromosome
chr8
Cytoband
q11.23
Reference genome
GRCh37/hg19
Start
53617387/52704827 (Hg38)
End
53617387/52704827 (Hg38)
Orient
-
Location type
Intron
Target gene
RB1CC1
miRNAs that regulate target gene
hsa-mir-133b ; hsa-mir-375 ; hsa-mir-98-5p ; hsa-mir-193b-3p ; hsa-mir-20a-5p ; hsa-mir-20b-5p ; hsa-mir-224-3p
Nearest miRNA
hsa-mir-124-1/Upstream/9808552; hsa-mir-10400/Downstream/9009961;
Nearest TSS
ENST00000518652/Upstream/43257; ENST00000331251/Downstream/9596;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/138760, chr8-CpG: 153/Downstream/8618
Nearest cancer related gene
RB1CC1(TSG, No orient, 0)
Upstream sequence
aatttgtgtataacttttgtctcccccaaaactttactaatagcctactgttgactggaaaccttaccaatgacataaatagtcgattatacgtattttg
Downstream sequence
ATAAGTATTACTTTTCACCAAATAGTCACGATTTCCTAAAATCTGACTTGATGCTCATTTTATATAAAGTCCTTCTTAACTTTTATAAAATGAAACCATA
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).
Curate