Virus Integration Site Database Data Release 2.0

Details for VISDB ID: TVIS30014592

Genomic Region Visualization (IGV)

Basic Information ▶
VISDB IDTVIS30014592
Fusion NameHIV-C1orf43 integration
ValidatedYes
Curated WayVISDB1.0
Methodligation mediated PCR
Wet AssayYes
Sample IDPT1
Sample NamePT1
Sample TypePBMC
Age47
Gender-
Disease Information ▶
Disease NameHIV-infected disease
Disease AbbreviationHID
CancerNo
Literature ▶
PubMed ID24968937
JournalScience
Published Year2014
Human Genome ▶
Human Genome Version DescriptionGRCh37/hg19
Human Genome RefSeq AccessionGCF_000001405.13
Human Chromosomechr1
Cytogenetic Bandq21.3
Human Strand+
Human Integration Location TypeIntronic
Hg19 Start154185506
Hg19 End154185555
Hg38 Start154213030
Hg38 End154213030
Junction Sequencegcgcagtggctcacgcctgtaattacagcaatttgggaggccggggcag
Target Gene ▶
Target GeneC1orf43
Nearby Gene-
Distance-
Virus Information ▶
Virus NameHuman Immunodeficiency Virus
Virus Subtype Name-
Virus Genome AccessionNot given
TaxonomyID11676
Virus AbbreviationHIV
Virus Genome-
Virus Genome Length9719
Virus Breakpoint1-
Virus Breakpoint2-
Virus Gene Name-
Virus Region Type-
Integrated Virus Sequence-
ViMIC ID-
Predicted VIS Effect ▶
Gene IdENSG00000143612.22
Gene NameC1orf43
TranscriptTranscript 1: ENST00000882189.1, Transcript 2: ENST00000648267.1, Transcript 3: ENST00000470180.2, Transcript 4: ENST00000368521.10, Transcript 5: ENST00000362076.8, Transcript 6: ENST00000350592.7, Transcript 7: ENST00000882190.1, Transcript 8: ENST00000940679.1, Transcript 9: ENST00000882192.1, Transcript 10: ENST00000958841.1, Transcript 11: ENST00000882191.1, Transcript 12: ENST00000940680.1, Transcript 13: ENST00000640799.1, Transcript 14: ENST00000368519.5, Transcript 15: ENST00000493814.1, Transcript 16: ENST00000368518.5, Transcript 17: ENST00000368516.1
Transcript 1 Regionintron
Transcript 1 Impactintronic_insertion
Transcript 2 Regionintron
Transcript 2 Impactintronic_insertion
Transcript 3 Regionintron
Transcript 3 Impactintronic_insertion
Transcript 4 Regionintron
Transcript 4 Impactintronic_insertion
Transcript 5 Regionintron
Transcript 5 Impactintronic_insertion
Transcript 6 Regionintron
Transcript 6 Impactintronic_insertion
Transcript 7 Regionintron
Transcript 7 Impactintronic_insertion
Transcript 8 Regionintron
Transcript 8 Impactintronic_insertion
Transcript 9 Regionintron
Transcript 9 Impactintronic_insertion
Transcript 10 Regionintron
Transcript 10 Impactintronic_insertion
Transcript 11 Regionintron
Transcript 11 Impactintronic_insertion
Transcript 12 Regionintron
Transcript 12 Impactintronic_insertion
Transcript 13 Regionintron
Transcript 13 Impactintronic_insertion
Transcript 14 Regionintron
Transcript 14 Impactintronic_insertion
Transcript 15 Regionpromoter
Transcript 15 Impactpromoter_insertion
Transcript 16 Regionintron
Transcript 16 Impactintronic_insertion
Transcript 17 Regionintron
Transcript 17 Impactintronic_insertion
SpliceAI Score
Delta ScoresAcceptor Gain: 0.010 | Acceptor Loss: 0.010 | Donor Gain: 0.010 | Donor Loss: 0.020
Delta Score Max0.020
Delta Position at Max-710
Delta Score FlagLOW
GeneC1orf43
AlphaGenome Analysis
Windowchr1:154147494-154278566
RNA-seq Change (±2kb)Mean: -0.009789375588297844 | Peak: 16.345947265625
ATAC Change (±2kb)Mean: -0.0003289419983047992 | Peak: 8.445556640625
InterpretationRNA-seq: minimal change -2.5% | Splice sites: no signal in region (REF≈0, ALT≈0) | ATAC: minimal change -1.0%
Visualization
Related Links: VISDB1.0  |  UCSC  |  NCBI  |  Ensembl  |  OncoKB  |  ONGene  |  HumCFS  |  COSMIC  |  miRTarBase  |  NPInter  |  ATACdb  |  ENCODE  |  Cytoscape
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