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    pax6b paired box 6b [ Danio rerio (zebrafish) ]

    Gene ID: 60639, updated on 2-Nov-2024

    Summary

    Official Symbol
    pax6bprovided by ZNC
    Official Full Name
    paired box 6bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-001031-1
    See related
    Ensembl:ENSDARG00000045936 AllianceGenome:ZFIN:ZDB-GENE-001031-1
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    cb566; Pax6.2; fc09c10; id:ibd5095; wu:fc09c10; wu:fc33g08
    Summary
    Enables DNA-binding transcription factor activity, RNA polymerase II-specific. Acts upstream of or within several processes, including brain development; camera-type eye development; and enteroendocrine cell differentiation. Predicted to be located in nucleus. Is expressed in several structures, including anterior neural keel; endocrine system; immature eye; nervous system; and neural plate. Human ortholog(s) of this gene implicated in bilateral optic nerve hypoplasia; eye disease (multiple); glucose intolerance; and paranoid schizophrenia. Orthologous to human PAX6 (paired box 6). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
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    Genomic context

    See pax6b in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (15871383..15897078)
    105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (15619410..15647807)

    Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene multiple C2 domains, transmembrane 2b Neighboring gene reticulocalbin 1, EF-hand calcium binding domain Neighboring gene elongator acetyltransferase complex subunit 4 Neighboring gene inner mitochondrial membrane peptidase subunit 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    acts_upstream_of_or_within anterior/posterior pattern specification IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in brain development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within cornea development in camera-type eye IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within enteroendocrine cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within epithalamus development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within eye development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in forebrain development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within hindbrain development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within lens development in camera-type eye IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within lens morphogenesis in camera-type eye IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in nervous system development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within neural crest cell migration IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within pancreatic A cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within pancreatic D cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within pancreatic epsilon cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
     
    acts_upstream_of_or_within regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of gene expression IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in retina development in camera-type eye IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in sensory organ development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in type B pancreatic cell differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within type B pancreatic cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    paired box protein Pax-6b
    Names
    paired box gene 6b
    sri(l)

    NCBI Reference Sequences (RefSeq)

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    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_131641.1NP_571716.1  paired box protein Pax-6b

      See identical proteins and their annotated locations for NP_571716.1

      Status: PROVISIONAL

      Source sequence(s)
      AF061252
      UniProtKB/TrEMBL
      A0A286Y952, A0A8M1P8P3, F1QKK6, Q9YHZ8
      Related
      ENSDARP00000019067.7, ENSDART00000014572.8
      Conserved Domains (2) summary
      smart00351
      Location:23147
      PAX; Paired Box domain
      pfam00046
      Location:233285
      Homeobox; Homeobox domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007118.7 Reference GRCz11 Primary Assembly

      Range
      15871383..15897078
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005168822.5XP_005168879.1  paired box protein Pax-6b isoform X4

      UniProtKB/TrEMBL
      A0A8M2BG41
      Conserved Domains (2) summary
      smart00351
      Location:23160
      PAX; Paired Box domain
      pfam00046
      Location:246298
      Homeobox; Homeobox domain
    2. XM_009302973.4XP_009301248.1  paired box protein Pax-6b isoform X5

      UniProtKB/TrEMBL
      A0A8M3B3W1
      Conserved Domains (2) summary
      smart00351
      Location:23147
      PAX; Paired Box domain
      pfam00046
      Location:233285
      Homeobox; Homeobox domain
    3. XM_005168819.5XP_005168876.1  paired box protein Pax-6b isoform X1

      See identical proteins and their annotated locations for XP_005168876.1

      UniProtKB/TrEMBL
      A0A0R4IQL7, A0A8M6Z765
      Related
      ENSDARP00000115545.3, ENSDART00000145946.4
      Conserved Domains (2) summary
      smart00351
      Location:23160
      PAX; Paired Box domain
      pfam00046
      Location:246298
      Homeobox; Homeobox domain
    4. XM_021477603.2XP_021333278.1  paired box protein Pax-6b isoform X3

      UniProtKB/TrEMBL
      A0A8M9Q1T3
      Conserved Domains (2) summary
      smart00351
      Location:5129
      PAX; Paired Box domain
      pfam00046
      Location:215267
      Homeobox; Homeobox domain
    5. XM_017356906.3XP_017212395.1  paired box protein Pax-6b isoform X1

      UniProtKB/TrEMBL
      A0A0R4IQL7, A0A8M6Z765
      Related
      ENSDARP00000152284.1, ENSDART00000192252.1
      Conserved Domains (2) summary
      smart00351
      Location:23160
      PAX; Paired Box domain
      pfam00046
      Location:246298
      Homeobox; Homeobox domain
    6. XM_068222401.1XP_068078502.1  paired box protein Pax-6b isoform X2

    7. XM_021477602.2XP_021333277.1  paired box protein Pax-6b isoform X2

      UniProtKB/TrEMBL
      A0A8M9PP46
      Conserved Domains (2) summary
      smart00351
      Location:5142
      PAX; Paired Box domain
      pfam00046
      Location:228280
      Homeobox; Homeobox domain