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    neurod6b neuronal differentiation 6b [ Danio rerio (zebrafish) ]

    Gene ID: 114415, updated on 9-Dec-2024

    Summary

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    Official Symbol
    neurod6bprovided by ZNC
    Official Full Name
    neuronal differentiation 6bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-010608-2
    See related
    Ensembl:ENSDARG00000020794 AllianceGenome:ZFIN:ZDB-GENE-010608-2
    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
    ndr1b; Zath2b; atoh2b; zNdr1b; zgc:92543
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and E-box binding activity. Predicted to be involved in axon development; positive regulation of transcription by RNA polymerase II; and sensory organ development. Predicted to act upstream of or within cell differentiation and nervous system development. Predicted to be active in nucleus. Is expressed in brain. Orthologous to human NEUROD6 (neuronal differentiation 6). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See neurod6b in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (50608064..50629155)
    105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (50873834..50894925)

    Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene vimentin like Neighboring gene phosphodiesterase 1C, calmodulin-dependent b Neighboring gene uncharacterized LOC137487489 Neighboring gene chemokine (C motif) receptor 1b, duplicate 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: 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

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    Related articles in PubMed

    1. The functional specificity of NeuroD is defined by a single amino acid residue (N11) in the basic domain. Wang X, et al. FEBS Lett, 2002 Jun 5. PMID 12044886
    2. Chromosomal organization, evolutionary relationship, and expression of zebrafish GnRH family members. Kuo MW, et al. J Biomed Sci, 2005. PMID 16132106
    3. Neurologic and ocular phenotype in Pitt-Hopkins syndrome and a zebrafish model. Brockschmidt A, et al. Hum Genet, 2011 Nov. PMID 21544580
    4. Histone H4 acetylation regulates behavioral inter-individual variability in zebrafish. Román AC, et al. Genome Biol, 2018 Apr 25. PMID 29695303, Free PMC Article
    5. Transcriptomics reveal an integrative role for maternal thyroid hormones during zebrafish embryogenesis. Silva N, et al. Sci Rep, 2017 Nov 30. PMID 29192226, Free PMC Article

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables E-box binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein dimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in axon development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within nervous system development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in sensory organ development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    neurogenic differentiation factor 6-B
    Names
    atonal homolog 2b
    neuroD6-B
    neurogenic differentiation 6b
    protein atonal homolog 2-B

    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_001309843.1 → NP_001296772.1  neurogenic differentiation factor 6-B isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
      Source sequence(s)
      CABZ01053213, EH579843, EH597220, FP102049
      UniProtKB/TrEMBL
      A0A2R8RW30, A0A8M1P297
      Related
      ENSDARP00000154261.1, ENSDART00000185805.1
      Conserved Domains (2) summary
      cd00083
      Location:92 → 150
      HLH; Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, ...
      pfam12533
      Location:152 → 271
      Neuro_bHLH; Neuronal helix-loop-helix transcription factor

    2. NM_001309844.1 → NP_001296773.1  neurogenic differentiation factor 6-B isoform 2

      See identical proteins and their annotated locations for NP_001296773.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and lacks a portion of the 5' coding region, compared to variant 1. The encoded isoform (2) has a shorter N-terminus compared to isoform 1. Both variants 2 and 3 encode the same isoform (2).
      Source sequence(s)
      CABZ01053213, EH579843, EH597220, FP102049
      UniProtKB/Swiss-Prot
      Q6DHB0, Q9W6C7
      Related
      ENSDARP00000101953.4, ENSDART00000111135.4
      Conserved Domains (2) summary
      cd00083
      Location:77 → 135
      HLH; Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, ...
      pfam12533
      Location:137 → 256
      Neuro_bHLH; Neuronal helix-loop-helix transcription factor

    3. NM_131817.3 → NP_571892.3  neurogenic differentiation factor 6-B isoform 2

      See identical proteins and their annotated locations for NP_571892.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and lack a portion of the 5' coding region, compared to variant 1. The encoded isoform (2) has a shorter N-terminus compared to isoform 1. Both variants 2 and 3 encode the same isoform (2).
      Source sequence(s)
      EH579843, EH597220, FP102049
      UniProtKB/Swiss-Prot
      Q6DHB0, Q9W6C7
      Related
      ENSDARP00000088468.3, ENSDART00000018150.9
      Conserved Domains (2) summary
      cd00083
      Location:77 → 135
      HLH; Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, ...
      pfam12533
      Location:137 → 256
      Neuro_bHLH; Neuronal helix-loop-helix transcription factor

    RNA

    1. NR_132274.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses an alternate 5' terminal exon and uses an alternate splice site at its 3' terminal exon, compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
      Source sequence(s)
      EH547864, FP102049

    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_007113.7 Reference GRCz11 Primary Assembly

      Range
      50608064..50629155
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9W6C7.3 GenPept UniProtKB/Swiss-Prot:Q9W6C7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.