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tpm3 tropomyosin 3 [ Danio rerio (zebrafish) ]

Gene ID: 373076, updated on 2-Nov-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 myopathy 4A and nemaline myopathy 1. Orthologous to human TPM3 (tropomyosin 3). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
all
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Genomic context

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See tpm3 in Genome Data Viewer
Location:
chromosome: 19
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (10988538..11031152, 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 cytosolic phospholipase A2 gamma Neighboring gene microseminoprotein, prostate associated 2 Neighboring gene Rho guanine nucleotide exchange factor (GEF) 2a Neighboring gene si:dkey-240h12.4

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: 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_007130.7 Reference GRCz11 Primary Assembly

    Range
    10988538..11031152 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005159376.3 → XP_005159433.1  tropomyosin alpha-3 chain isoform X1

    UniProtKB/TrEMBL
    A0A8M2B5W0, I3ISQ1
    Related
    ENSDARP00000125941.1, ENSDART00000151375.3
    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_005159375.3 → XP_005159432.1  tropomyosin alpha-3 chain isoform X3

    UniProtKB/TrEMBL
    A0A2R8Q650, A0A8M2B5V8
    Related
    ENSDARP00000149575.1, ENSDART00000188025.1
    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_005159374.3 → XP_005159431.1  tropomyosin alpha-3 chain isoform X2

    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_005159380.4 → XP_005159437.1  tropomyosin alpha-3 chain isoform X4

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

  5. XM_005159379.4 → 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

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