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    grna granulin a [ Danio rerio (zebrafish) ]

    Gene ID: 791524, updated on 27-Mar-2024

    Summary

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    Official Symbol
    grnaprovided by ZNC
    Official Full Name
    granulin aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-8434
    See related
    Ensembl:ENSDARG00000004954 AllianceGenome:ZFIN:ZDB-GENE-030131-8434
    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
    grn; sb:eu337; wu:fb11g12; wu:fj18f05
    Summary
    Acts upstream of or within axon extension; liver development; and skeletal muscle acetylcholine-gated channel clustering. Predicted to be active in extracellular region. Is expressed in several structures, including digestive system; hematopoietic system; immature eye; nervous system; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in dementia (multiple); neurodegenerative disease (multiple); neuronal ceroid lipofuscinosis 11; and primary progressive multiple sclerosis. Orthologous to human GRN (granulin precursor). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    See grna in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (29914427..29941376, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (29783585..29810515, complement)

    Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene ribosomal protein L27 Neighboring gene RUN domain containing 1 Neighboring gene granulin a antisense Neighboring gene interferon-induced protein 35 Neighboring gene branched chain amino-acid transaminase 2, mitochondrial

    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. Folding of Truncated Granulin Peptides. Takjoo R, et al. Biomolecules, 2020 Aug 6. PMID 32781704, Free PMC Article
    2. The neurotrophic properties of progranulin depend on the granulin E domain but do not require sortilin binding. De Muynck L, et al. Neurobiol Aging, 2013 Nov. PMID 23706646
    3. Progranulin is neurotrophic in vivo and protects against a mutant TDP-43 induced axonopathy. Laird AS, et al. PLoS One, 2010 Oct 13. PMID 20967127, Free PMC Article
    4. The role of microglia in the neurogenesis of zebrafish retina. Huang T, et al. Biochem Biophys Res Commun, 2012 May 4. PMID 22497888, Free PMC Article
    5. Structure dissection of zebrafish progranulins identifies a well-folded granulin/epithelin module protein with pro-cell survival activities. Wang P, et al. Protein Sci, 2018 Aug. PMID 29732682, Free PMC Article

    See all (31) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CRISPR/Cas9-mediated grna gene knockout leads to neurodevelopmental defects and motor behavior changes in zebrafish.
      Title: CRISPR/Cas9-mediated grna gene knockout leads to neurodevelopmental defects and motor behavior changes in zebrafish.
    2. Granulins Regulate Aging Kinetics in the Adult Zebrafish Telencephalon.
      Title: Granulins Regulate Aging Kinetics in the Adult Zebrafish Telencephalon.
    3. The data od this study suggest that Pgrn-a plays a dual role during nervous system development by governing the rate at which progenitors progress through the cell cycle and attracting microglial progenitors into the embryonic brain and retina.
      Title: Progranulin regulates neurogenesis in the developing vertebrate retina.
    4. Findings show that miR-145 and GrnA expression patterns are inversely correlated during liver development and provide evidence that GrnA-dependent hepatic outgrowth is regulated by miR-145 in zebrafish embryonic development.
      Title: MiR-145 mediates zebrafish hepatic outgrowth through progranulin A signaling.
    5. the Grna and Grnb single and double knock out zebrafish lack any obvious morphological, pathological and biochemical phenotypes
      Title: Granulin knock out zebrafish lack frontotemporal lobar degeneration and neuronal ceroid lipofuscinosis pathology.
    6. GrnA positively modulates hepatic MET expression both in vivo and in vitro.
      Title: Progranulin A-mediated MET signaling is essential for liver morphogenesis in zebrafish.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    acts_upstream_of_or_within axon extension IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within axon extension IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within eye photoreceptor cell development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within liver development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within liver development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of negative regulation of microglial cell activation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of positive regulation of neurogenesis IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of positive regulation of oligodendrocyte differentiation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within posterior lateral line neuromast development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within retina layer formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within skeletal muscle acetylcholine-gated channel clustering IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within spinal cord motor neuron differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within swimming behavior IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in extracellular region IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    granulin a; granulin-a
    Names
    pgrn-a
    progranulin
    zfPGRN-A

    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_001001949.3 → NP_001001949.3  granulin a isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      BX901883, CR384107
      UniProtKB/TrEMBL
      Q8QGN9
      Conserved Domains (1) summary
      pfam00396
      Location:302 → 343
      Granulin

    2. NM_001361234.1 → NP_001348163.1  granulin a isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      BX901883, CR384107
      UniProtKB/TrEMBL
      A0A8M2BBG9, E9QI45, Q8QGN9
      Conserved Domains (1) summary
      pfam00396
      Location:475 → 516
      Granulin; Granulin

    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_007114.7 Reference GRCz11 Primary Assembly

      Range
      29914427..29941376 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021474022.1 → XP_021329697.1  granulin-a isoform X7

      UniProtKB/TrEMBL
      A0A8M9PEV4, Q8QGN9
      Conserved Domains (1) summary
      pfam00396
      Location:478 → 519
      Granulin

    2. XM_005163966.3 → XP_005164023.1  granulin-a isoform X4

      UniProtKB/TrEMBL
      A0A8M2BB46, Q8QGN9
      Conserved Domains (2) summary
      smart00277
      Location:979 → 1026
      GRAN; Granulin
      pfam00396
      Location:563 → 604
      Granulin; Granulin

    3. XM_005163965.3 → XP_005164022.1  granulin-a isoform X5

      UniProtKB/TrEMBL
      A0A8M2BB98, Q8QGN9
      Conserved Domains (2) summary
      smart00277
      Location:979 → 1026
      GRAN; Granulin
      pfam00396
      Location:563 → 604
      Granulin; Granulin

    4. XM_005163964.3 → XP_005164021.1  granulin-a isoform X2

      UniProtKB/TrEMBL
      A0A8M2BB97
      Conserved Domains (2) summary
      smart00277
      Location:1064 → 1111
      GRAN; Granulin
      pfam00396
      Location:472 → 513
      Granulin; Granulin

    5. XM_009299478.2 → XP_009297753.1  granulin-a isoform X3

      UniProtKB/TrEMBL
      A0A8M3AQX2, Q8QGN9
      Conserved Domains (2) summary
      smart00277
      Location:982 → 1029
      GRAN; Granulin
      pfam00396
      Location:566 → 607
      Granulin; Granulin

    6. XM_009299477.2 → XP_009297752.1  granulin-a isoform X1

      UniProtKB/TrEMBL
      A0A8M3B8B0
      Conserved Domains (2) summary
      smart00277
      Location:1067 → 1114
      GRAN; Granulin
      pfam00396
      Location:475 → 516
      Granulin; Granulin

    7. XM_005163971.3 → XP_005164028.1  granulin-a isoform X8

      UniProtKB/TrEMBL
      A0A8M2BB61
      Conserved Domains (2) summary
      smart00277
      Location:806 → 853
      GRAN; Granulin
      pfam00396
      Location:390 → 431
      Granulin; Granulin

    8. XM_005163969.3 → XP_005164026.1  granulin-a isoform X6

      UniProtKB/TrEMBL
      A0A8M2BBG9, E9QI45, Q8QGN9
      Related
      ENSDARP00000113859.1, ENSDART00000137973.3
      Conserved Domains (1) summary
      pfam00396
      Location:475 → 516
      Granulin; Granulin
    Nucleotide Protein Strain
    Heading Accession and Version

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