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    kera keratocan [ Danio rerio (zebrafish) ]

    Gene ID: 567017, updated on 9-Dec-2024

    Summary

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    Official Symbol
    keraprovided by ZNC
    Official Full Name
    keratocanprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-041210-165
    See related
    Ensembl:ENSDARG00000056938 AllianceGenome:ZFIN:ZDB-GENE-041210-165
    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
    zgc:136259; si:dkeyp-38g8.3
    Summary
    Predicted to act upstream of or within visual perception. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Is expressed in central nervous system; corneal epithelial cell; epidermis; and eye. Human ortholog(s) of this gene implicated in arcus senilis; cornea plana; and corneal dystrophy. Orthologous to human KERA (keratocan). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See kera in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 4 NC_007115.7 (16338611..16345059, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 4 NC_007115.6 (16348180..16356083, complement)

    Chromosome 4 - NC_007115.7Genomic Context describing neighboring genes Neighboring gene si:dkeyp-38g8.5 Neighboring gene epiphycan Neighboring gene lumican Neighboring gene decorin

    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. Molecular analysis and characterization of zebrafish keratocan (zKera) gene. Yeh LK, et al. J Biol Chem, 2008 Jan 4. PMID 17965408
    2. Morphological differences between the trabecular meshworks of zebrafish and mammals. Chen CC, et al. Curr Eye Res, 2008 Jan. PMID 18214743
    3. Znf469 Plays a Critical Role in Regulating Synthesis of ECM: A Zebrafish Model of Brittle Cornea Syndrome. Bao J, et al. Invest Ophthalmol Vis Sci, 2023 May 1. PMID 37256609, Free PMC Article
    4. Small leucine-rich proteoglycans inhibit CNS regeneration by modifying the structural and mechanical properties of the lesion environment. Kolb J, et al. Nat Commun, 2023 Oct 26. PMID 37884489, Free PMC Article
    5. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC136259

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    acts_upstream_of_or_within visual perception IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    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
    keratocan

    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_001025548.2 → NP_001020719.1  keratocan precursor

      See identical proteins and their annotated locations for NP_001020719.1

      Status: PROVISIONAL

      Source sequence(s)
      BC115058
      UniProtKB/Swiss-Prot
      Q0PZF1, Q5RI43
      Related
      ENSDARP00000073976.5, ENSDART00000079521.6
      Conserved Domains (3) summary
      sd00033
      Location:72 → 95
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:266 → 328
      LRR_8; Leucine rich repeat
      cl26018
      Location:105 → 291
      NEL; C-terminal novel E3 ligase, LRR-interacting

    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_007115.7 Reference GRCz11 Primary Assembly

      Range
      16338611..16345059 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005164765.3 → XP_005164822.1  keratocan isoform X1

      See identical proteins and their annotated locations for XP_005164822.1

      UniProtKB/Swiss-Prot
      Q5RI43
      Conserved Domains (4) summary
      smart00013
      Location:33 → 67
      LRRNT; Leucine rich repeat N-terminal domain
      cd00116
      Location:68 → 175
      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:65 → 88
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:135 → 196
      LRR_8; Leucine rich repeat
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5RI43.1 GenPept UniProtKB/Swiss-Prot:Q5RI43

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