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

Gene ID: 325958, updated on 27-Mar-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, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 15
Exon count:
3
Annotation release Status Assembly Chr Location
106 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 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

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 (11) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

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
  

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: 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_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

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