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tp53 tumor protein p53 [ Danio rerio (zebrafish) ]

Gene ID: 30590, updated on 22-Nov-2020

Summary

Official Symbol
tp53provided by ZNC
Official Full Name
tumor protein p53provided by ZNC
Primary source
ZFIN:ZDB-GENE-990415-270
See related
Ensembl:ENSDARG00000035559
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
p5; brp; drp; p53; brp53; drp53; fb40d06; etID22686.; wu:fb40d06; zgc:111919; etID22686.5
Orthologs

Genomic context

See tp53 in Genome Data Viewer
Location:
chromosome: 5
Exon count:
12
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (24086227..24097807)
105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (23582427..23594005)
103 previous assembly Zv9 (GCF_000002035.4) 5 NC_007116.5 (25755153..25766740)

Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene GABA(A) receptor-associated protein a Neighboring gene G protein pathway suppressor 2 Neighboring gene si:ch211-114c12.5 Neighboring gene capping protein (actin filament), gelsolin-like a

Genomic regions, transcripts, and products

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
 
DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
promoter-specific chromatin binding ISS
Inferred from Sequence or Structural Similarity
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
transcription regulatory region sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
DNA damage checkpoint IMP
Inferred from Mutant Phenotype
more info
PubMed 
DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator IMP
Inferred from Mutant Phenotype
more info
PubMed 
apoptotic process IEA
Inferred from Electronic Annotation
more info
 
apoptotic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
apoptotic process involved in blood vessel morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
autophagy IGI
Inferred from Genetic Interaction
more info
PubMed 
cell cycle IEA
Inferred from Electronic Annotation
more info
 
cellular response to DNA damage stimulus ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to hypoxia IMP
Inferred from Mutant Phenotype
more info
PubMed 
cellular senescence IGI
Inferred from Genetic Interaction
more info
PubMed 
definitive hemopoiesis IGI
Inferred from Genetic Interaction
more info
PubMed 
epidermis morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
erythrocyte development IGI
Inferred from Genetic Interaction
more info
PubMed 
erythrocyte maturation IGI
Inferred from Genetic Interaction
more info
PubMed 
hematopoietic stem cell homeostasis IGI
Inferred from Genetic Interaction
more info
PubMed 
intestinal epithelial structure maintenance IGI
Inferred from Genetic Interaction
more info
PubMed 
intrinsic apoptotic signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator IGI
Inferred from Genetic Interaction
more info
PubMed 
intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of angiogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
negative regulation of cell cycle IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of cell division IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of transposition, RNA-mediated IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of apoptotic process IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of apoptotic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of cell cycle IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of cysteine-type endopeptidase activity involved in apoptotic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of neuron apoptotic process IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription, DNA-templated IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein tetramerization IEA
Inferred from Electronic Annotation
more info
 
regulation of double-strand break repair IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of protein stability IGI
Inferred from Genetic Interaction
more info
PubMed 
regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
PubMed 
regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
response to UV IMP
Inferred from Mutant Phenotype
more info
PubMed 
response to X-ray IMP
Inferred from Mutant Phenotype
more info
PubMed 
response to methylmercury IDA
Inferred from Direct Assay
more info
PubMed 
spermatogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
Component Evidence Code Pubs
chromatin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chromatin IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
nucleus IEA
Inferred from Electronic Annotation
more info
 
nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
cellular tumor antigen p53
Names
delta113 p53
tumor suppressor p53

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001271820.1NP_001258749.1  cellular tumor antigen p53 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer protein (isoform 1).
    Source sequence(s)
    AL928875, CT619016, CT704385, EH435782, EH479527
    UniProtKB/TrEMBL
    G1K2L5
    Related
    ENSDARP00000051548.3, ENSDART00000051549.5
    Conserved Domains (2) summary
    pfam00870
    Location:64258
    P53; P53 DNA-binding domain
    pfam07710
    Location:294335
    P53_tetramer; P53 tetramerization motif
  2. NM_001328587.1NP_001315516.1  cellular tumor antigen p53 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses two alternate in-frame splice sites in the coding region compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
    Source sequence(s)
    AL928875
    UniProtKB/TrEMBL
    B0R0M3
    Related
    ENSDARP00000116736.1, ENSDART00000135934.3
    Conserved Domains (2) summary
    pfam00870
    Location:63257
    P53; P53 DNA-binding domain
    pfam07710
    Location:289330
    P53_tetramer; P53 tetramerization motif
  3. NM_001328588.1NP_001315517.1  cellular tumor antigen p53 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate 5' most exon whic hresults in the use of a downstream start codon compared to variant 1. The encoded isoform (4) has a shorter N-terminus compared to isoform 1.
    Source sequence(s)
    AL928875
    UniProtKB/TrEMBL
    A0A0B4VFS7
    Related
    ENSDARP00000151125.1, ENSDART00000183748.1
    Conserved Domains (2) summary
    pfam07710
    Location:181222
    P53_tetramer; P53 tetramerization motif
    cl14608
    Location:1145
    P53; P53 DNA-binding domain
  4. NM_131327.2NP_571402.1  cellular tumor antigen p53 isoform 2

    See identical proteins and their annotated locations for NP_571402.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 5' coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.
    Source sequence(s)
    AL928875, CT619016, CT635558, CT704385, EH479527
    UniProtKB/Swiss-Prot
    P79734
    Related
    ENSDARP00000144168.2, ENSDART00000177458.2
    Conserved Domains (2) summary
    pfam00870
    Location:63257
    P53; P53 DNA-binding domain
    pfam07710
    Location:293334
    P53_tetramer; P53 tetramerization motif

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007116.7 Reference GRCz11 Primary Assembly

    Range
    24086227..24097807
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005165101.4XP_005165158.1  cellular tumor antigen p53 isoform X1

    Conserved Domains (2) summary
    pfam00870
    Location:64258
    P53; P53 DNA-binding domain
    pfam07710
    Location:290331
    P53_tetramer; P53 tetramerization motif
  2. XM_005165103.4XP_005165160.1  cellular tumor antigen p53 isoform X2

    See identical proteins and their annotated locations for XP_005165160.1

    UniProtKB/TrEMBL
    A0A0B4VFS7
    Related
    ENSDART00000135083.2
    Conserved Domains (2) summary
    pfam07710
    Location:181222
    P53_tetramer; P53 tetramerization motif
    cl14608
    Location:1145
    P53; P53 DNA-binding domain
  3. XM_005165104.4XP_005165161.1  cellular tumor antigen p53 isoform X3

    Conserved Domains (2) summary
    pfam07710
    Location:177218
    P53_tetramer; P53 tetramerization motif
    cl14608
    Location:1145
    P53; P53 DNA-binding domain

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394575.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    92364..102794
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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