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

Gene ID: 553561, updated on 2-Nov-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, Nov 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 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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