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    tpm3 tropomyosin 3 [ Danio rerio (zebrafish) ]

    Gene ID: 373076, updated on 10-Sep-2024

    Summary

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    Official Symbol
    tpm3provided by ZNC
    Official Full Name
    tropomyosin 3provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030826-16
    See related
    Ensembl:ENSDARG00000005162 AllianceGenome:ZFIN:ZDB-GENE-030826-16
    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
    cb674; fa17b11; fb83b01; fk41e01; zeh0298; zgc:77592; hm:zeh0298; wu:fa17b11; wu:fb83b01; wu:fk41e01
    Summary
    Predicted to enable actin filament binding activity. Acts upstream of or within skeletal myofibril assembly. Predicted to be active in actin filament. Is expressed in several structures, including adaxial cell; alar plate midbrain region; axis; brain; and musculature system. Human ortholog(s) of this gene implicated in congenital fiber-type disproportion and nemaline myopathy 1. Orthologous to human TPM3 (tropomyosin 3). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    Location:
    chromosome: 19
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (10988538..11031147, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (11070540..11113154, complement)

    Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene si:ch73-347e22.8 Neighboring gene cytosolic phospholipase A2 zeta-like Neighboring gene microseminoprotein, prostate associated 2 Neighboring gene Rho guanine nucleotide exchange factor (GEF) 2a Neighboring gene si:dkey-240h12.4 Neighboring gene uncharacterized LOC103909207

    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. Determination of the source of SHG verniers in zebrafish skeletal muscle. Dempsey WP, et al. Sci Rep, 2015 Dec 11. PMID 26657568, Free PMC Article
    2. Spatio-Temporal Differences in Dystrophin Dynamics at mRNA and Protein Levels Revealed by a Novel FlipTrap Line. Ruf-Zamojski F, et al. PLoS One, 2015. PMID 26083378, Free PMC Article
    3. Quaking RNA-Binding Proteins Control Early Myofibril Formation by Modulating Tropomyosin. Bonnet A, et al. Dev Cell, 2017 Sep 11. PMID 28867488
    4. Next-generation in situ hybridization chain reaction: higher gain, lower cost, greater durability. Choi HM, et al. ACS Nano, 2014 May 27. PMID 24712299, Free PMC Article
    5. Integrating multiple genome annotation databases improves the interpretation of microarray gene expression data. Yin J, et al. BMC Genomics, 2010 Jan 20. PMID 20089164, Free PMC Article

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. This work uncovers a Quaking/Tpm3 pathway controlling de novo myofibril assembly.
      Title: Quaking RNA-Binding Proteins Control Early Myofibril Formation by Modulating Tropomyosin.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC77592

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables actin binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables actin filament binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in actin filament organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in muscle contraction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within skeletal myofibril assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in actin filament IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    tropomyosin alpha-3 chain

    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_201492.3 → NP_958900.1  tropomyosin alpha-3 chain isoform 2

      See identical proteins and their annotated locations for NP_958900.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in both UTRs and the coding region, compared to variant 1. The encoded isoform (2) is shorter and has distinct N- and C-termini, compared to isoform 1.
      Source sequence(s)
      CU628002, CU638713
      UniProtKB/TrEMBL
      A0A8N7V058, Q803M1
      Related
      ENSDARP00000012717.6, ENSDART00000010997.8
      Conserved Domains (1) summary
      pfam00261
      Location:12 → 246
      Tropomyosin

    2. NM_205676.2 → NP_991239.1  tropomyosin alpha-3 chain isoform 1

      See identical proteins and their annotated locations for NP_991239.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      BC065425, CT573147, EH435601, EH437151
      UniProtKB/TrEMBL
      A0A8M1PD40, Q6P0W3
      Related
      ENSDARP00000004352.8, ENSDART00000027598.9
      Conserved Domains (3) summary
      pfam00261
      Location:48 → 282
      Tropomyosin; Tropomyosin
      pfam07851
      Location:180 → 274
      TMPIT; TMPIT-like protein
      cl01255
      Location:36 → 105
      DAGK_cat; Diacylglycerol kinase catalytic domain

    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
      10988538..11031147 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005159376.2 → XP_005159433.1  tropomyosin alpha-3 chain isoform X2

      UniProtKB/TrEMBL
      A0A8M2B5W0, I3ISQ1
      Conserved Domains (3) summary
      pfam00261
      Location:48 → 282
      Tropomyosin; Tropomyosin
      pfam07851
      Location:180 → 264
      TMPIT; TMPIT-like protein
      cl01255
      Location:36 → 105
      DAGK_cat; Diacylglycerol kinase catalytic domain

    2. XM_005159375.2 → XP_005159432.1  tropomyosin alpha-3 chain isoform X3

      UniProtKB/TrEMBL
      A0A2R8Q650, A0A8M2B5V8
      Conserved Domains (3) summary
      pfam00261
      Location:48 → 282
      Tropomyosin; Tropomyosin
      pfam07851
      Location:180 → 264
      TMPIT; TMPIT-like protein
      cl01255
      Location:36 → 105
      DAGK_cat; Diacylglycerol kinase catalytic domain

    3. XM_005159374.2 → XP_005159431.1  tropomyosin alpha-3 chain isoform X1

      UniProtKB/TrEMBL
      A0A8M2B602
      Conserved Domains (3) summary
      pfam00261
      Location:48 → 282
      Tropomyosin; Tropomyosin
      pfam07851
      Location:180 → 274
      TMPIT; TMPIT-like protein
      cl01255
      Location:36 → 105
      DAGK_cat; Diacylglycerol kinase catalytic domain

    4. XM_005159380.3 → XP_005159437.1  tropomyosin alpha-3 chain isoform X4

      UniProtKB/TrEMBL
      A0A8M2B695
      Conserved Domains (1) summary
      pfam00261
      Location:12 → 246
      Tropomyosin

    5. XM_005159379.3 → XP_005159436.1  tropomyosin alpha-3 chain isoform X5

      UniProtKB/TrEMBL
      A0A8M2B6C5
      Conserved Domains (1) summary
      pfam00261
      Location:12 → 246
      Tropomyosin
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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