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grna granulin a [ Danio rerio (zebrafish) ]

Gene ID: 791524, updated on 9-Dec-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 several processes, including neuron differentiation; sensory system 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, Dec 2024]
Orthologs
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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
RS_2024_08 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (29914427..29941357, 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 Neighboring gene hydroxysteroid (17-beta) dehydrogenase 14

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. TDP-43 condensates and lipid droplets regulate the reactivity of microglia and regeneration after traumatic brain injury. Zambusi A, et al. Nat Neurosci, 2022 Dec. PMID 36424432
  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 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
  5. 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

See all (34) 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
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
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
    Related
    ENSDARP00000094299.3, ENSDART00000103523.5
    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
    A0A8M2BB98, A0A8M2BBG9, E9QI45
    Conserved Domains (1) summary
    pfam00396
    Location:475 → 516
    Granulin; Granulin

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_007114.7 Reference GRCz11 Primary Assembly

    Range
    29914427..29941357 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005163966.4 → XP_005164023.1  granulin a isoform X4

    UniProtKB/TrEMBL
    A0A8M2BB46, A0A8M2BB98
    Conserved Domains (2) summary
    smart00277
    Location:979 → 1026
    GRAN; Granulin
    pfam00396
    Location:563 → 604
    Granulin; Granulin

  2. XM_068217711.1 → XP_068073812.1  granulin a isoform X5

    UniProtKB/TrEMBL
    A0A8M2BB98

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

    UniProtKB/TrEMBL
    A0A8M2BB97, A0A8M2BB98
    Conserved Domains (2) summary
    smart00277
    Location:1064 → 1111
    GRAN; Granulin
    pfam00396
    Location:472 → 513
    Granulin; Granulin

  4. XM_009299478.3 → XP_009297753.1  granulin a isoform X3

    UniProtKB/TrEMBL
    A0A8M2BB98, A0A8M3AQX2
    Conserved Domains (2) summary
    smart00277
    Location:982 → 1029
    GRAN; Granulin
    pfam00396
    Location:566 → 607
    Granulin; Granulin

  5. XM_005163969.4 → XP_005164026.1  granulin a isoform X6

    UniProtKB/TrEMBL
    A0A8M2BB98, A0A8M2BBG9, E9QI45
    Related
    ENSDARP00000113859.1, ENSDART00000137973.3
    Conserved Domains (1) summary
    pfam00396
    Location:475 → 516
    Granulin; Granulin

  6. XM_009299477.3 → XP_009297752.1  granulin a isoform X1

    UniProtKB/TrEMBL
    A0A8M2BB98, A0A8M3B8B0
    Conserved Domains (2) summary
    smart00277
    Location:1067 → 1114
    GRAN; Granulin
    pfam00396
    Location:475 → 516
    Granulin; Granulin
Nucleotide Protein Strain
Heading Accession and Version

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