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    sub1a SUB1 regulator of transcription a [ Danio rerio (zebrafish) ]

    Gene ID: 553561, updated on 9-Dec-2024

    Summary

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    Official Symbol
    sub1aprovided by ZNC
    Official Full Name
    SUB1 regulator of transcription aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050522-151
    See related
    Ensembl:ENSDARG00000053446 AllianceGenome:ZFIN:ZDB-GENE-050522-151
    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
    zgc:109973
    Summary
    Predicted to enable transcription coactivator activity. Predicted to act upstream of or within positive regulation of transcription initiation by RNA polymerase II. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Is expressed in central nucleus of ventral telencephalon. Orthologous to human SUB1 (SUB1 regulator of transcription). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See sub1a in Genome Data Viewer
    Location:
    chromosome: 10
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (8091144..8098099)
    105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (8132444..8139399)

    Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene si:ch211-251f6.6 Neighboring gene zgc:173443 Neighboring gene proline-serine-threonine phosphatase interacting protein 2 Neighboring gene NADH:ubiquinone oxidoreductase subunit A9b Neighboring gene multiciliate differentiation and DNA synthesis associated cell cycle protein

    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. Comprehensive expression map of transcription regulators in the adult zebrafish telencephalon reveals distinct neurogenic niches. Diotel N, et al. J Comp Neurol, 2015 Jun 1. PMID 25556858, Free PMC Article
    2. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Clone Names

    • MGC109973

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transcription coactivator activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within positive regulation of transcription initiation by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    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
    		  
    part_of transcription regulator complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    SUB1 regulator of transcription a
    Names
    SUB1 homolog a
    SUB1 homolog, transcriptional regulator a

    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_001020540.3 → NP_001018376.1  SUB1 regulator of transcription a isoform 1

      See identical proteins and their annotated locations for NP_001018376.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein (isoform 1).
      Source sequence(s)
      EH451454, EH580604, EH584863
      UniProtKB/TrEMBL
      A0A2R8QBN2, F6NJR5, Q504B1
      Related
      ENSDARP00000069967.3, ENSDART00000075485.4
      Conserved Domains (1) summary
      pfam02229
      Location:64 → 111
      PC4; Transcriptional Coactivator p15 (PC4)

    2. NM_001281997.1 → NP_001268926.1  SUB1 regulator of transcription a isoform 1

      See identical proteins and their annotated locations for NP_001268926.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer protein (isoform 1). Variants 1 and 2 encode the same protein.
      Source sequence(s)
      EH451454, EH556435, EH580604
      UniProtKB/TrEMBL
      A0A2R8QBN2, F6NJR5, Q504B1
      Related
      ENSDARP00000118111.1, ENSDART00000143848.3
      Conserved Domains (1) summary
      pfam02229
      Location:64 → 111
      PC4; Transcriptional Coactivator p15 (PC4)

    3. NM_001281998.1 → NP_001268927.1  SUB1 regulator of transcription a isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate splice site in the coding region compared to variant 1. The resulting protein (isoform 2) is shorter and has a distinct C-terminus compared to isoform 1.
      Source sequence(s)
      BX664706
      UniProtKB/TrEMBL
      A0A8M1P637

    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_007121.7 Reference GRCz11 Primary Assembly

      Range
      8091144..8098099
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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