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    colec11 collectin sub-family member 11 [ Danio rerio (zebrafish) ]

    Gene ID: 492459, updated on 5-Oct-2024

    Summary

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    Official Symbol
    colec11provided by ZNC
    Official Full Name
    collectin sub-family member 11provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-041114-11
    See related
    Ensembl:ENSDARG00000013266 AllianceGenome:ZFIN:ZDB-GENE-041114-11
    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
    wu:fb82e09; zgc:103572
    Summary
    Predicted to enable several functions, including calcium ion binding activity; calcium-dependent carbohydrate binding activity; and monosaccharide binding activity. Involved in developmental process. Acts upstream of or within neural crest cell migration. Predicted to be located in extracellular region. Predicted to be part of collagen trimer. Predicted to be active in extracellular space. Is expressed in head; hindbrain; liver; pronephric duct; and pronephric glomerulus. Human ortholog(s) of this gene implicated in 3MC syndrome 2. Orthologous to human COLEC11 (collectin subfamily member 11). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See colec11 in Genome Data Viewer
    Location:
    chromosome: 17
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (36516697..36675721, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 17 NC_007128.6 (36569118..36599716, complement)

    Chromosome 17 - NC_007128.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC103909056 Neighboring gene uncharacterized LOC137488128 Neighboring gene doublecortin domain containing 2C Neighboring gene 5-hydroxytryptamine (serotonin) receptor 1B Neighboring gene interphotoreceptor matrix proteoglycan 1b Neighboring gene myosin VIb Neighboring gene SUMO specific peptidase 6b

    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 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. Mutations in lectin complement pathway genes COLEC11 and MASP1 cause 3MC syndrome. Rooryck C, et al. Nat Genet, 2011 Mar. PMID 21258343, Free PMC Article
    2. The SARS-CoV-2 receptor and other key components of the Renin-Angiotensin-Aldosterone System related to COVID-19 are expressed in enterocytes in larval zebrafish. Postlethwait JH, et al. Biol Open, 2021 Mar 23. PMID 33757938, Free PMC Article
    3. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article
    4. 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
    5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

    See all (7) 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 D-mannose binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables D-mannose binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables calcium ion binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables calcium-dependent carbohydrate binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables fucose binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oligosaccharide binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in antimicrobial humoral response ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in complement activation, lectin pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in developmental process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within immune system process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within innate immune response IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within neural crest cell migration IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within neural crest cell migration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of collagen trimer IEA
    Inferred from Electronic Annotation
    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
    collectin-11

    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_001007331.1 → NP_001007332.1  collectin-11 precursor

      See identical proteins and their annotated locations for NP_001007332.1

      Status: PROVISIONAL

      Source sequence(s)
      BC085557
      UniProtKB/Swiss-Prot
      Q5U3G1
      Related
      ENSDARP00000016314.6, ENSDART00000025019.7
      Conserved Domains (2) summary
      cd03591
      Location:151 → 266
      CLECT_collectin_like; C-type lectin-like domain (CTLD) of the type found in human collectins including lung surfactant proteins A and D, mannose- or mannan binding lectin (MBL), and CL-L1 (collectin liver 1)
      pfam01391
      Location:44 → 102
      Collagen; Collagen triple helix repeat (20 copies)

    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_007128.7 Reference GRCz11 Primary Assembly

      Range
      36516697..36675721 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068214397.1 → XP_068070498.1  collectin-11 isoform X2

    2. XM_068214396.1 → XP_068070497.1  collectin-11 isoform X1

    3. XM_009293192.4 → XP_009291467.1  collectin-11 isoform X4

      See identical proteins and their annotated locations for XP_009291467.1

      UniProtKB/TrEMBL
      A0A8M3AK08
      Conserved Domains (2) summary
      cd03591
      Location:157 → 272
      CLECT_collectin_like; C-type lectin-like domain (CTLD) of the type found in human collectins including lung surfactant proteins A and D, mannose- or mannan binding lectin (MBL), and CL-L1 (collectin liver 1)
      pfam01391
      Location:44 → 102
      Collagen; Collagen triple helix repeat (20 copies)

    4. XM_068214398.1 → XP_068070499.1  collectin-11 isoform X3

    5. XM_009293191.4 → XP_009291466.1  collectin-11 isoform X4

      See identical proteins and their annotated locations for XP_009291466.1

      UniProtKB/TrEMBL
      A0A8M3AK08
      Conserved Domains (2) summary
      cd03591
      Location:157 → 272
      CLECT_collectin_like; C-type lectin-like domain (CTLD) of the type found in human collectins including lung surfactant proteins A and D, mannose- or mannan binding lectin (MBL), and CL-L1 (collectin liver 1)
      pfam01391
      Location:44 → 102
      Collagen; Collagen triple helix repeat (20 copies)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5U3G1.1 GenPept UniProtKB/Swiss-Prot:Q5U3G1

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