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    Prrt1 proline-rich transmembrane protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 406167, updated on 25-Apr-2024

    Summary

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    Official Symbol
    Prrt1provided by RGD
    Official Full Name
    proline-rich transmembrane protein 1provided by RGD
    Primary source
    RGD:1359348
    See related
    Ensembl:ENSRNOG00000000433 AllianceGenome:RGD:1359348
    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
    Ng5; DSPD1; Orf31; SynDIG4
    Summary
    Predicted to enable identical protein binding activity and signaling receptor regulator activity. Predicted to be involved in several processes, including long-term synaptic depression; protein localization to cell surface; and regulation of AMPA receptor activity. Predicted to act upstream of or within several processes, including learning or memory; long-term synaptic potentiation; and synapse organization. Is active in glutamatergic synapse. Is integral component of postsynaptic membrane. Orthologous to human PRRT1 (proline rich transmembrane protein 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 29.8), Brain (RPKM 21.2) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Prrt1 in Genome Data Viewer
    Location:
    20p12
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (4122565..4126386, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (4117957..4121643, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (4392605..4396271)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120098978 Neighboring gene activating transcription factor 6 beta Neighboring gene FKBP prolyl isomerase like Neighboring gene palmitoyl-protein thioesterase 2 Neighboring gene EGF-like-domain, multiple 8 Neighboring gene 1-acylglycerol-3-phosphate O-acyltransferase 1 Neighboring gene ring finger protein 5

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Distribution of the SynDIG4/proline-rich transmembrane protein 1 in rat brain. Kirk LM, et al. J Comp Neurol, 2016 Aug 1. PMID 26660156, Free PMC Article
    2. SynDIG4/Prrt1 Is Required for Excitatory Synapse Development and Plasticity Underlying Cognitive Function. Matt L, et al. Cell Rep, 2018 Feb 27. PMID 29490264, Free PMC Article
    3. Identification and characterization of the BRI2 interactome in the brain. Martins F, et al. Sci Rep, 2018 Feb 23. PMID 29476059, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC109407

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables signaling receptor regulator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within learning or memory ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in long-term synaptic depression ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in long-term synaptic depression ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within long-term synaptic potentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within protein localization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to cell surface ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to cell surface ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within synapse organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in postsynaptic density membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in postsynaptic density membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in postsynaptic membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in synaptic vesicle membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    proline-rich transmembrane protein 1
    Names
    dispanin subfamily D member 1
    synapse differentiation-induced protein 4

    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_001032285.2 → NP_001027456.1  proline-rich transmembrane protein 1

      See identical proteins and their annotated locations for NP_001027456.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000020
      UniProtKB/Swiss-Prot
      Q6MG82
      UniProtKB/TrEMBL
      A6KTI9
      Related
      ENSRNOP00000000495.4, ENSRNOT00000000495.7
      Conserved Domains (1) summary
      pfam04505
      Location:215 → 285
      CD225; Interferon-induced transmembrane protein

    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_086038.1 Reference GRCr8

      Range
      4122565..4126386 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063279358.1 → XP_063135428.1  proline-rich transmembrane protein 1 isoform X3

    2. XM_063279357.1 → XP_063135427.1  proline-rich transmembrane protein 1 isoform X3

    3. XM_006255980.4 → XP_006256042.1  proline-rich transmembrane protein 1 isoform X1

      Conserved Domains (1) summary
      pfam04505
      Location:301 → 371
      CD225; Interferon-induced transmembrane protein

    4. XM_006255981.5 → XP_006256043.1  proline-rich transmembrane protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A8I6A292
      Related
      ENSRNOP00000085419.1
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6MG82.2 GenPept UniProtKB/Swiss-Prot:Q6MG82

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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