Virus Integration Site Database Data Release 2.0

Details for VISDB ID: TVIS10015118

Genomic Region Visualization (IGV)

Basic Information ▶
VISDB IDTVIS10015118
Fusion NameHBV-TERT integration
ValidatedYes
Curated WayVISDB1.0
MethodPCR and Sanger sequencing
Wet AssayYes
Sample ID268
Sample Name268T
Sample TypeTumor
Age-
Gender-
Disease Information ▶
Disease NameHepatocellular carcinoma
Disease AbbreviationHCC
CancerYes
Literature ▶
PubMed ID22634754
JournalNature GeNetics
Published Year2012
Human Genome ▶
Human Genome Version DescriptionGRCh37/hg19
Human Genome RefSeq AccessionGCF_000001405.13
Human Chromosomechr5
Cytogenetic Bandp15.33
Human Strand+
Human Integration Location TypeIntronic
Hg19 Start1291984
Hg19 End1292371
Hg38 Start1291869
Hg38 End1292256
Junction SequenceCTCCTCAACGAAGGAAGCTGGAGCACAAAAAGCAAAACTGGGTTGCATGACGCTTATCTGACTCGGCGTGGTCCACCTGAGCCGCAGCAGGTGTGAggcagctgccgttcgatgggtagggacttccagtcacgcaagacgcagcatttcaagcaacctgctgtaaacaccgccgagttagcaattctgcactgtacacagaaaacggtgttaggagtgccaatctcatgttatatgacttttgccaccataaaa
Target Gene ▶
Target GeneTERT
Nearby Gene-
Distance-
Virus Information ▶
Virus NameHepatitis B virus
Virus Subtype Name-
Virus Genome AccessionNC_003977
TaxonomyID10407
Virus AbbreviationHBV
Virus GenomeHepatitis B virus (strain ayw) genome
Virus Genome Length3182
Virus Breakpoint12447
Virus Breakpoint22998
Virus Gene Name-
Virus Region TypeHBVgp1 Polymerase;HBVgp4 precore/core protein
Integrated Virus SequenceATGTTAGTATTCCTTGGACTCATAAGGTGGGGAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTCATTGGAAAACACCATCTTTTCCTAATATACATTTACACCAAGACATTATCAAAAAATGTGAACAGTTTGTAGGCCCACTCACAGTTAATGAGAAAAGAAGATTGCAATTGATTATGCCTGCCAGGTTTTATCCAAAGGTTACCAAATATTTACCATTGGATAAGGGTATTAAACCTT
ViMIC ID-
Predicted VIS Effect ▶
Gene IdENSG00000164362.22
Gene NameTERT
Regionintron
Impactintronic_insertion
TranscriptTranscript 1: ENST00000656021.1, Transcript 2: ENST00000310581.10, Transcript 3: ENST00000922986.1, Transcript 4: ENST00000922985.1, Transcript 5: ENST00000334602.10, Transcript 6: ENST00000460137.6
SpliceAI Score
Delta ScoresAcceptor Gain: 0.190 | Acceptor Loss: 0.010 | Donor Gain: 0.010 | Donor Loss: 0.010
Delta Score Max0.190
Delta Position at Max0
Delta Score FlagLOW
GeneTERT
Altered Protein (FASTA)
AlphaGenome Analysis
Windowchr5:1226333-1357405
RNA-seq Change (±2kb)Mean: -0.0040571074932813644 | Peak: 4.2412109375
ATAC Change (±2kb)Mean: 0.0016720530111342669 | Peak: 8.181488037109375
InterpretationRNA-seq: DECREASED 36.0% (REF=0.01, ALT=0.01) | Splice sites: no signal in region (REF≈0, ALT≈0) | ATAC: minimal change 8.0%
Visualization
Related Links: VISDB1.0  |  UCSC  |  NCBI  |  Ensembl  |  OncoKB  |  ONGene  |  HumCFS  |  COSMIC  |  miRTarBase  |  NPInter  |  ATACdb  |  ENCODE  |  Cytoscape
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