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    Agrn agrin [ Rattus norvegicus (Norway rat) ]

    Gene ID: 25592, updated on 9-Dec-2024

    Summary

    Official Symbol
    Agrnprovided by RGD
    Official Full Name
    agrinprovided by RGD
    Primary source
    RGD:2067
    See related
    EnsemblRapid:ENSRNOG00000020205 AllianceGenome:RGD:2067
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    AGR
    Summary
    Enables calcium ion binding activity; cytokine binding activity; and dystroglycan binding activity. Involved in several processes, including positive regulation of macromolecule metabolic process; regulation of plasma membrane bounded cell projection organization; and synapse organization. Acts upstream of or within receptor clustering. Located in axonal growth cone; basement membrane; and synapse. Is active in glutamatergic synapse. Human ortholog(s) of this gene implicated in congenital myasthenic syndrome 8. Orthologous to human AGRN (agrin). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 245.6), Kidney (RPKM 170.8) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Agrn in Genome Data Viewer
    Location:
    5q36
    Exon count:
    41
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (172031528..172064429, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (166749306..166782212, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (173589910..173622813, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene ring finger protein 223 Neighboring gene single-stranded DNA binding protein 2, pseudogene 1 Neighboring gene ISG15 ubiquitin-like modifier Neighboring gene PPARGC1 and ESRR induced regulator, muscle 1 Neighboring gene pleckstrin homology domain containing N1

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATPase inhibitor activity  
    enables BMP binding PubMed 
    enables acetylcholine receptor regulator activity  
    enables calcium ion binding PubMed 
    enables calcium ion binding  
    enables calcium ion binding  
    enables chondroitin sulfate binding  
    enables chondroitin sulfate binding  
    enables dystroglycan binding PubMed 
    enables heparan sulfate proteoglycan binding  
    enables heparan sulfate proteoglycan binding  
    enables laminin binding  
    enables protein binding PubMed 
    enables receptor ligand activity  
    enables sialic acid binding  
    enables transforming growth factor beta binding PubMed 
    enables transmembrane transporter binding  
    Items 1 - 25 of 45
    Process Evidence Code Pubs
    involved_in cell differentiation  
    involved_in chemical synaptic transmission PubMed 
    acts_upstream_of_or_within chemical synaptic transmission  
    acts_upstream_of_or_within circadian rhythm  
    involved_in enzyme-linked receptor protein signaling pathway  
    acts_upstream_of motor neuron apoptotic process  
    involved_in negative regulation of P-type sodium:potassium-exchanging transporter activity  
    involved_in negative regulation of sodium ion export across plasma membrane  
    involved_in neuromuscular junction development  
    acts_upstream_of_or_within neuromuscular junction development  
    involved_in neuromuscular junction development PubMed 
    acts_upstream_of_or_within plasma membrane organization  
    involved_in positive regulation of GTPase activity PubMed 
    involved_in positive regulation of Rac protein signal transduction  
    involved_in positive regulation of filopodium assembly PubMed 
    acts_upstream_of_or_within positive regulation of motor neuron apoptotic process  
    involved_in positive regulation of peptidyl-tyrosine phosphorylation PubMed 
    involved_in positive regulation of protein geranylgeranylation  
    involved_in positive regulation of protein phosphorylation PubMed 
    involved_in positive regulation of protein phosphorylation  
    involved_in positive regulation of protein tyrosine kinase activity  
    involved_in positive regulation of skeletal muscle acetylcholine-gated channel clustering  
    involved_in positive regulation of synaptic assembly at neuromuscular junction  
    involved_in positive regulation of synaptic assembly at neuromuscular junction  
    involved_in positive regulation of transcription by RNA polymerase II PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II  
    acts_upstream_of_or_within protein transport  
    involved_in receptor clustering  
    acts_upstream_of_or_within receptor clustering PubMed 
    involved_in receptor clustering  
    acts_upstream_of_or_within receptor clustering  
    involved_in receptor clustering  
    involved_in receptor clustering  
    involved_in regulation of axon guidance PubMed 
    involved_in regulation of cardiac muscle cell membrane potential  
    involved_in regulation of cardiac muscle contraction  
    involved_in regulation of microtubule cytoskeleton organization PubMed 
    involved_in regulation of protein phosphorylation PubMed 
    involved_in regulation of synapse organization PubMed 
    involved_in regulation of synapse organization PubMed 
    acts_upstream_of_or_within regulation of synaptic activity  
    involved_in regulation of synaptic assembly at neuromuscular junction  
    involved_in skeletal muscle acetylcholine-gated channel clustering PubMed 
    involved_in skeletal muscle acetylcholine-gated channel clustering PubMed 
    involved_in synapse assembly PubMed 
    Items 1 - 25 of 45
    Component Evidence Code Pubs
    located_in axonal growth cone PubMed 
    located_in basement membrane PubMed 
    located_in basement membrane  
    located_in basement membrane  
    located_in basement membrane  
    located_in cell junction  
    located_in cell surface  
    located_in collagen-containing extracellular matrix  
    located_in extracellular region  
    located_in extracellular region  
    is_active_in extracellular space  
    located_in extracellular space  
    is_active_in glutamatergic synapse PubMed 
    is_active_in glutamatergic synapse PubMed 
    located_in plasma membrane  
    located_in sarcolemma  
    located_in synapse PubMed 
    is_active_in synapse  
    located_in synapse  

    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_001429555.1NP_001416484.1  agrin isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A6IUW3, F1LPF2
    2. NM_175754.3NP_786930.2  agrin isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A6IUW3
      Related
      ENSRNOP00000108828.1, ENSRNOT00000154534.1
      Conserved Domains (7) summary
      smart00280
      Location:384429
      KAZAL; Kazal type serine protease inhibitors
      smart00200
      Location:10231147
      SEA; Domain found in sea urchin sperm protein, enterokinase, agrin
      cd00054
      Location:17161748
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd00104
      Location:316356
      KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...
      pfam00053
      Location:688730
      Laminin_EGF; Laminin EGF domain
      pfam00054
      Location:12911422
      Laminin_G_1; Laminin G domain
      cl00097
      Location:244284
      KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086023.1 Reference GRCr8

      Range
      172031528..172064429 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063287202.1XP_063143272.1  agrin isoform X7

      UniProtKB/TrEMBL
      A6IUW3
    2. XM_017593169.3XP_017448658.1  agrin isoform X4

      UniProtKB/Swiss-Prot
      P25304, Q63034
    3. XM_006239542.5XP_006239604.1  agrin isoform X6

      Related
      ENSRNOP00000103040.1, ENSRNOT00000126412.1
      Conserved Domains (8) summary
      smart00280
      Location:491536
      KAZAL; Kazal type serine protease inhibitors
      smart00200
      Location:11301254
      SEA; Domain found in sea urchin sperm protein, enterokinase, agrin
      cd00054
      Location:18191851
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd00104
      Location:423463
      KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...
      pfam00050
      Location:351391
      Kazal_1; Kazal-type serine protease inhibitor domain
      pfam00053
      Location:795837
      Laminin_EGF; Laminin EGF domain
      pfam00054
      Location:13981529
      Laminin_G_1; Laminin G domain
      pfam03146
      Location:46148
      NtA; Agrin NtA domain
    4. XM_017593167.3XP_017448656.1  agrin isoform X2

      UniProtKB/Swiss-Prot
      P25304, Q63034
    5. XM_006239541.5XP_006239603.1  agrin isoform X5

      UniProtKB/TrEMBL
      A6IUW3, D4A2F1
      Related
      ENSRNOP00000040828.4, ENSRNOT00000047854.5
      Conserved Domains (8) summary
      smart00280
      Location:491536
      KAZAL; Kazal type serine protease inhibitors
      smart00200
      Location:11301254
      SEA; Domain found in sea urchin sperm protein, enterokinase, agrin
      cd00054
      Location:18231855
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd00104
      Location:423463
      KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...
      pfam00050
      Location:351391
      Kazal_1; Kazal-type serine protease inhibitor domain
      pfam00053
      Location:795837
      Laminin_EGF; Laminin EGF domain
      pfam00054
      Location:13981529
      Laminin_G_1; Laminin G domain
      pfam03146
      Location:46148
      NtA; Agrin NtA domain
    6. XM_017593168.3XP_017448657.1  agrin isoform X3

      UniProtKB/Swiss-Prot
      P25304, Q63034
    7. XM_017593166.3XP_017448655.1  agrin isoform X1

      UniProtKB/Swiss-Prot
      P25304, Q63034
      Related
      ENSRNOP00000050623.6, ENSRNOT00000045678.7
    8. XM_017593170.3XP_017448659.1  agrin isoform X8

      UniProtKB/Swiss-Prot
      P25304, Q63034
      Related
      ENSRNOP00000105718.1, ENSRNOT00000150948.1
    9. XM_039109320.2XP_038965248.1  agrin isoform X9

      Conserved Domains (6) summary
      smart00280
      Location:3782
      KAZAL; Kazal type serine protease inhibitors
      smart00200
      Location:611735
      SEA; Domain found in sea urchin sperm protein, enterokinase, agrin
      cd00054
      Location:13041336
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      pfam00008
      Location:812843
      EGF; EGF-like domain
      pfam00053
      Location:276318
      Laminin_EGF; Laminin EGF domain
      pfam00054
      Location:8791010
      Laminin_G_1; Laminin G domain
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