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

Gene ID: 114415, updated on 2-Nov-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, Nov 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 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

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