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    trps1 trichorhinophalangeal syndrome I [ Danio rerio (zebrafish) ]

    Gene ID: 795613, updated on 27-Mar-2024

    Summary

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    Official Symbol
    trps1provided by ZNC
    Official Full Name
    trichorhinophalangeal syndrome Iprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-8404
    See related
    Ensembl:ENSDARG00000104082 AllianceGenome:ZFIN:ZDB-GENE-030131-8404
    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
    wu:fb11b10
    Summary
    Predicted to enable RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be located in nucleus. Human ortholog(s) of this gene implicated in osteochondrodysplasia; trichorhinophalangeal syndrome type I; and trichorhinophalangeal syndrome type III. Orthologous to human TRPS1 (transcriptional repressor GATA binding 1). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    chromosome: 19
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (45374866..45650994, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (45779333..46059018, complement)

    Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene RAD21 cohesin complex component b Neighboring gene CUB and Sushi multiple domains 3b Neighboring gene transfer RNA glutamine (anticodon CUG) Neighboring gene eukaryotic translation initiation factor 3, subunit H, b Neighboring gene UTP23 small subunit processome component

    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. hand2 and Dlx genes specify dorsal, intermediate and ventral domains within zebrafish pharyngeal arches. Talbot JC, et al. Development, 2010 Aug 1. PMID 20573696, Free PMC Article
    2. Evolution of vertebrate gill covers via shifts in an ancient Pou3f3 enhancer. Barske L, et al. Proc Natl Acad Sci U S A, 2020 Oct 6. PMID 32958671, Free PMC Article
    3. Zebrafish model for spondylo-megaepiphyseal-metaphyseal dysplasia reveals post-embryonic roles of Nkx3.2 in the skeleton. Smeeton J, et al. Development, 2021 Jan 25. PMID 33462117, Free PMC Article
    4. Expression of Protein-Coding Gene Orthologs in Zebrafish and Mouse Inner Ear Non-sensory Supporting Cells. Giffen KP, et al. Front Neurosci, 2019. PMID 31680844, Free PMC Article
    5. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger transcription factor Trps1
    Names
    transcription factor Trps1

    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_001177934.1 → NP_001171405.1  zinc finger transcription factor Trps1

      See identical proteins and their annotated locations for NP_001171405.1

      Status: PROVISIONAL

      Source sequence(s)
      GU556967
      UniProtKB/TrEMBL
      D4P0Z5
      Related
      ENSDARP00000137858.1, ENSDART00000163504.2
      Conserved Domains (2) summary
      smart00401
      Location:838 → 881
      ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]
      cd00202
      Location:842 → 898
      ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007130.7 Reference GRCz11 Primary Assembly

      Range
      45374866..45650994 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009294450.3 → XP_009292725.1  zinc finger transcription factor Trps1 isoform X1

      See identical proteins and their annotated locations for XP_009292725.1

      UniProtKB/TrEMBL
      A0A8M3AL78, F1QEY1
      Conserved Domains (2) summary
      smart00401
      Location:838 → 881
      ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]
      cd00202
      Location:842 → 898
      ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

    2. XM_009294449.3 → XP_009292724.1  zinc finger transcription factor Trps1 isoform X1

      See identical proteins and their annotated locations for XP_009292724.1

      UniProtKB/TrEMBL
      A0A8M3AL78, F1QEY1
      Conserved Domains (2) summary
      smart00401
      Location:838 → 881
      ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]
      cd00202
      Location:842 → 898
      ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C
    Nucleotide Protein Strain
    Heading Accession and Version

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