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Agrn agrin [ Rattus norvegicus (Norway rat) ]

Gene ID: 25592, updated on 25-Nov-2021

Summary

Official Symbol
Agrnprovided by RGD
Official Full Name
agrinprovided by RGD
Primary source
RGD:2067
See related
EnsemblRapid:ENSRNOG00000020205
Gene type
protein coding
RefSeq status
PROVISIONAL
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
may play a role in synapse development and regeneration [RGD, Feb 2006]
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
108 current 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_051340.1Genomic Context describing neighboring genes Neighboring gene ring finger protein 223 Neighboring gene hypothetical LOC100362942 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

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ATPase inhibitor activity ISO
Inferred from Sequence Orthology
more info
 
enables BMP binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables acetylcholine receptor regulator activity ISO
Inferred from Sequence Orthology
more info
 
enables calcium ion binding IDA
Inferred from Direct Assay
more info
PubMed 
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
 
enables calcium ion binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables chondroitin sulfate binding ISO
Inferred from Sequence Orthology
more info
 
enables chondroitin sulfate binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables dystroglycan binding IDA
Inferred from Direct Assay
more info
PubMed 
enables heparan sulfate proteoglycan binding ISO
Inferred from Sequence Orthology
more info
 
enables heparan sulfate proteoglycan binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables laminin binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables sialic acid binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables transforming growth factor beta binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transmembrane transporter binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in G protein-coupled acetylcholine receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
 
involved_in animal organ morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in chemical synaptic transmission IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within chemical synaptic transmission ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of P-type sodium:potassium-exchanging transporter activity ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of catalytic activity IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of sodium ion export across plasma membrane ISO
Inferred from Sequence Orthology
more info
 
involved_in neuromuscular junction development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within neuromuscular junction development ISO
Inferred from Sequence Orthology
more info
 
involved_in neuromuscular junction development TAS
Traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within neurotransmitter receptor metabolic process ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within plasma membrane organization ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of GTPase activity IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of filopodium assembly IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of neuron apoptotic process ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of peptidyl-tyrosine phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of protein binding ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of protein geranylgeranylation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of protein phosphorylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of protein phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of protein tyrosine kinase activity ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of synaptic assembly at neuromuscular junction ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of synaptic assembly at neuromuscular junction ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in receptor clustering IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within receptor clustering IDA
Inferred from Direct Assay
more info
PubMed 
involved_in receptor clustering IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within receptor clustering ISO
Inferred from Sequence Orthology
more info
 
involved_in receptor clustering ISO
Inferred from Sequence Orthology
more info
 
involved_in receptor clustering ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of GTPase activity ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of axon guidance IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of cardiac muscle cell membrane potential ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of cardiac muscle contraction ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of microtubule cytoskeleton organization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of protein phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of synapse organization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of synapse organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of synaptic assembly at neuromuscular junction ISO
Inferred from Sequence Orthology
more info
 
involved_in skeletal muscle acetylcholine-gated channel clustering IDA
Inferred from Direct Assay
more info
PubMed 
involved_in skeletal muscle acetylcholine-gated channel clustering IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in synapse assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in tissue development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in axonal growth cone IDA
Inferred from Direct Assay
more info
PubMed 
located_in basement membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in basement membrane IEA
Inferred from Electronic Annotation
more info
 
located_in basement membrane ISO
Inferred from Sequence Orthology
more info
 
located_in basement membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in cell surface ISO
Inferred from Sequence Orthology
more info
 
located_in collagen-containing extracellular matrix ISO
Inferred from Sequence Orthology
more info
 
located_in extracellular matrix TAS
Traceable Author Statement
more info
PubMed 
located_in extracellular region TAS
Traceable Author Statement
more info
 
located_in extracellular space ISO
Inferred from Sequence Orthology
more info
 
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
located_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
 
located_in sarcolemma ISO
Inferred from Sequence Orthology
more info
 
located_in synapse IDA
Inferred from Direct Assay
more info
PubMed 
located_in synapse IEA
Inferred from Electronic Annotation
more info
 
is_active_in synapse ISO
Inferred from Sequence Orthology
more info
 
located_in synapse ISO
Inferred from Sequence Orthology
more info
 
located_in synaptic cleft ISO
Inferred from Sequence Orthology
more info
 

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_175754.2NP_786930.2  agrin

    Status: PROVISIONAL

    Source sequence(s)
    JACYVU010000162
    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: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

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

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051340.1 Reference mRatBN7.2 Primary Assembly

    Range
    166749306..166782212 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017593169.2XP_017448658.1  agrin isoform X4

  2. XM_006239542.4XP_006239604.1  agrin isoform X6

    Related
    ENSRNOP00000050623.5, ENSRNOT00000045678.6
    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
  3. XM_017593167.2XP_017448656.1  agrin isoform X2

  4. XM_006239541.4XP_006239603.1  agrin isoform X5

    Related
    ENSRNOP00000040828.4, ENSRNOT00000047854.4
    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
  5. XM_017593168.2XP_017448657.1  agrin isoform X3

  6. XM_017593166.2XP_017448655.1  agrin isoform X1

  7. XM_017593170.2XP_017448659.1  agrin isoform X7

  8. XM_039109320.1XP_038965248.1  agrin isoform X8

    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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