U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    OPTC opticin [ Bos taurus (domestic cattle) ]

    Gene ID: 404034, updated on 1-Jan-2025

    Summary

    Go to the top of the page Help
    Official Symbol
    OPTCprovided by VGNC
    Official Full Name
    opticinprovided by VGNC
    Primary source
    VGNC:VGNC:32441
    See related
    BGD:BT14804; Ensembl:ENSBTAG00000013764
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Bos taurus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Ruminantia; Pecora; Bovidae; Bovinae; Bos
    Also known as
    SLRP
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See OPTC in Genome Data Viewer
    Location:
    chromosome: 16
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_12 current ARS-UCD2.0 (GCF_002263795.3) 16 NC_037343.1 (1256292..1266491)

    Chromosome 16 - NC_037343.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107133214 Neighboring gene fibromodulin Neighboring gene uncharacterized LOC112441938 Neighboring gene proline and arginine rich end leucine rich repeat protein Neighboring gene ATPase plasma membrane Ca2+ transporting 4 Neighboring gene uncharacterized LOC132342430 Neighboring gene lymphocyte transmembrane adaptor 1

    Genomic regions, transcripts, and products

    Go to the top of the page Help
    Genomic Sequence:
    NC_037343.1 Chromosome 16 Reference ARS-UCD2.0 Primary Assembly

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Dominette sequence data
    • BioProject: PRJNA294306
    • Analysis date: Tue Dec 17 08:57:05 2024

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Characterization of opticin and evidence of stable dimerization in solution. Le Goff MM, et al. J Biol Chem, 2003 Nov 14. PMID 12951322
    2. Identification in vitreous and molecular cloning of opticin, a novel member of the family of leucine-rich repeat proteins of the extracellular matrix. Reardon AJ, et al. J Biol Chem, 2000 Jan 21. PMID 10636917
    3. A whole-genome assembly of the domestic cow, Bos taurus. Zimin AV, et al. Genome Biol, 2009. PMID 19393038, Free PMC Article
    4. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    5. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. opticin is a stable dimer in solution [OPTC, opticin]
      Title: Characterization of opticin and evidence of stable dimerization in solution.
    Submit: New GeneRIF Correction

    Pathways from PubChem

    Go to the top of the page

    General gene information

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in articular cartilage development IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in bone development IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in collagen fibril organization IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in extracellular matrix IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in extracellular space IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    opticin
    Names
    oculoglycan
    small leucine-rich repeat protein

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_205770.1 → NP_991339.1  opticin precursor

      See identical proteins and their annotated locations for NP_991339.1

      Status: PROVISIONAL

      Source sequence(s)
      AY249537
      UniProtKB/Swiss-Prot
      P58874, P83285, Q6X8P9
      Related
      ENSBTAP00000018286.5, ENSBTAT00000018286.7
      Conserved Domains (3) summary
      cd00116
      Location:159 → 270
      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:144 → 167
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:146 → 202
      LRR_8; Leucine rich repeat

    RefSeqs of Annotated Genomes: GCF_002263795.3-RS_2024_12

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference ARS-UCD2.0 Primary Assembly

    Genomic

    1. NC_037343.1 Reference ARS-UCD2.0 Primary Assembly

      Range
      1256292..1266491
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_059875248.1 → XP_059731231.1  opticin isoform X1

      UniProtKB/Swiss-Prot
      P58874, P83285, Q6X8P9

    2. XM_005216658.5 → XP_005216715.1  opticin isoform X1

      See identical proteins and their annotated locations for XP_005216715.1

      UniProtKB/Swiss-Prot
      P58874, P83285, Q6X8P9
      Conserved Domains (3) summary
      cd00116
      Location:159 → 270
      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:144 → 167
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:146 → 202
      LRR_8; Leucine rich repeat
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P58874.2 GenPept UniProtKB/Swiss-Prot:P58874

    Gene LinkOut

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