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    tsku tsukushi small leucine rich proteoglycan homolog (Xenopus laevis) [ Danio rerio (zebrafish) ]

    Gene ID: 325958, updated on 9-Dec-2024

    Summary

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    Official Symbol
    tskuprovided by ZNC
    Official Full Name
    tsukushi small leucine rich proteoglycan homolog (Xenopus laevis)provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-4683
    See related
    Ensembl:ENSDARG00000040815 AllianceGenome:ZFIN:ZDB-GENE-030131-4683
    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
    tsk; Z-TSK; fd51d02; zgc:56201; wu:fd51d02
    Summary
    Predicted to be involved in energy homeostasis and growth plate cartilage chondrocyte development. Predicted to be located in extracellular region. Predicted to be active in extracellular matrix and extracellular space. Is expressed in several structures, including germ ring; margin; mesoderm; pectoral fin bud; and tail bud. Orthologous to human TSKU (tsukushi, small leucine rich proteoglycan). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See tsku in Genome Data Viewer
    Location:
    chromosome: 15
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 15 NC_007126.7 (29343280..29354020, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 15 NC_007126.6 (29410404..29421144, complement)

    Chromosome 15 - NC_007126.7Genomic Context describing neighboring genes Neighboring gene XIAP associated factor 1 Neighboring gene RAP1 GTPase activating protein 2a Neighboring gene si:dkey-52l18.4 Neighboring gene guanylate cyclase 2F, retinal Neighboring gene serpin peptidase inhibitor, clade H (heat shock protein 47), member 1b

    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. Tsukushi functions as an organizer inducer by inhibition of BMP activity in cooperation with chordin. Ohta K, et al. Dev Cell, 2004 Sep. PMID 15363410, Free PMC Article
    2. Warfarin, a potential pollutant in aquatic environment acting through Pxr signaling pathway and γ-glutamyl carboxylation of vitamin K-dependent proteins. Fernández I, et al. Environ Pollut, 2014 Nov. PMID 25094061
    3. Whole-organism screening for gluconeogenesis identifies activators of fasting metabolism. Gut P, et al. Nat Chem Biol, 2013 Feb. PMID 23201900, Free PMC Article
    4. Global identification of SMAD2 target genes reveals a role for multiple co-regulatory factors in zebrafish early gastrulas. Liu Z, et al. J Biol Chem, 2011 Aug 12. PMID 21669877, Free PMC Article
    5. Construction of a large extracellular protein interaction network and its resolution by spatiotemporal expression profiling. Martin S, et al. Mol Cell Proteomics, 2010 Dec. PMID 20802085, Free PMC Article

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    involved_in energy homeostasis ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in growth plate cartilage chondrocyte development ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    is_active_in extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular space ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    tsukushi
    Names
    leucine-rich repeat-containing protein 54
    tsukushi, small leucine rich proteoglycan
    tsukushin

    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_001319185.1 → NP_001306114.1  tsukushi isoform 2 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate 5' most exon which results in a different 5' UTR and the use of a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      BX537138, CF998003
      UniProtKB/Swiss-Prot
      Q58A48, Q7ZUT1
      UniProtKB/TrEMBL
      A0A8M1P7E8, F1QUL3
      Related
      ENSDARP00000113704.1, ENSDART00000133117.3
      Conserved Domains (3) summary
      cd00116
      Location:89 → 292
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      sd00033
      Location:63 → 88
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:87 → 146
      LRR_8; Leucine rich repeat

    2. NM_199733.2 → NP_956027.2  tsukushi isoform 1 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      BX537138, CF997533
      UniProtKB/Swiss-Prot
      Q58A48, Q7ZUT1
      UniProtKB/TrEMBL
      A8BB59
      Conserved Domains (3) summary
      cd00116
      Location:108 → 311
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      sd00033
      Location:82 → 107
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:248 → 308
      LRR_8; Leucine rich repeat

    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_007126.7 Reference GRCz11 Primary Assembly

      Range
      29343280..29354020 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q58A48.2 GenPept UniProtKB/Swiss-Prot:Q58A48

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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