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    colec12 collectin sub-family member 12 [ Danio rerio (zebrafish) ]

    Gene ID: 558942, updated on 9-Dec-2024

    Summary

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    Official Symbol
    colec12provided by ZNC
    Official Full Name
    collectin sub-family member 12provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-9807
    See related
    Ensembl:ENSDARG00000061140 AllianceGenome:ZFIN:ZDB-GENE-030131-9807
    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
    cb377; zeh0853; sb:cb377; hm:zeh0853; id:ibd2826; si:ch211-212m21.5
    Summary
    Predicted to enable low-density lipoprotein particle binding activity and pattern recognition receptor activity. Acts upstream of or within vasculogenesis. Predicted to be located in membrane. Predicted to be part of collagen trimer. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Is expressed in several structures, including cardiovascular system; epidermis; mesoderm; musculature system; and periderm. Orthologous to human COLEC12 (collectin subfamily member 12). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See colec12 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (31382590..31435158)
    105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (31399338..31451940)

    Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene adenylate cyclase activating polypeptide 1b Neighboring gene YES proto-oncogene 1, Src family tyrosine kinase Neighboring gene clusterin-like 1 (retinal) Neighboring gene signal transducing adaptor molecule (SH3 domain and ITAM motif) 1 Neighboring gene transmembrane protein 236 Neighboring gene calcium channel, voltage-dependent, beta 2b

    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. Molecular cloning and functional analysis of scavenger receptor zebrafish CL-P1. Fukuda M, et al. Biochim Biophys Acta, 2011 Dec. PMID 22001438
    2. Identification, characterization, and mapping of expressed sequence tags from an embryonic zebrafish heart cDNA library. Ton C, et al. Genome Res, 2000 Dec. PMID 11116087, Free PMC Article
    3. A gene expression screen in zebrafish embryogenesis. Kudoh T, et al. Genome Res, 2001 Dec. PMID 11731487
    4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables low-density lipoprotein particle binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables pattern recognition receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in phagocytosis, recognition IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within vasculogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of collagen trimer IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in collagen-containing extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    collectin-12
    Names
    zCL-P1

    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_001122840.1 → NP_001116312.1  collectin-12

      See identical proteins and their annotated locations for NP_001116312.1

      Status: PROVISIONAL

      Source sequence(s)
      BX927088
      UniProtKB/Swiss-Prot
      A5PMY6, Q08CB7
      UniProtKB/TrEMBL
      A0A8M2BAJ9
      Related
      ENSDARP00000081297.5, ENSDART00000086863.7
      Conserved Domains (3) summary
      pfam01391
      Location:468 → 551
      Collagen; Collagen triple helix repeat (20 copies)
      cl02432
      Location:608 → 711
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
      cl23720
      Location:145 → 267
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

    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_007113.7 Reference GRCz11 Primary Assembly

      Range
      31382590..31435158
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A5PMY6.1 GenPept UniProtKB/Swiss-Prot:A5PMY6

    Gene LinkOut

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

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