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    Gramd4 GRAM domain containing 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 315203, updated on 14-Nov-2024

    Summary

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    Official Symbol
    Gramd4provided by RGD
    Official Full Name
    GRAM domain containing 4provided by RGD
    Primary source
    RGD:1309983
    See related
    EnsemblRapid:ENSRNOG00000016968 AllianceGenome:RGD:1309983
    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
    Dip; RGD1309983
    Summary
    Predicted to be involved in negative regulation of toll-like receptor 9 signaling pathway and positive regulation of cysteine-type endopeptidase activity involved in apoptotic process. Predicted to be located in membrane. Predicted to be active in mitochondrion. Orthologous to human GRAMD4 (GRAM domain containing 4). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Heart (RPKM 83.3), Kidney (RPKM 66.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Gramd4 in Genome Data Viewer
    Location:
    7q34
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (119030225..119103875)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (117150398..117224056)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (126939819..127013455)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene tRNA mitochondrial 2-thiouridylase Neighboring gene cadherin, EGF LAG seven-pass G-type receptor 1 Neighboring gene uncharacterized LOC134479762 Neighboring gene ceramide kinase Neighboring gene TBC1 domain family, member 22a like Neighboring gene TBC1 domain family, member 22a

    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 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. Endoplasmic Protein Nogo-B (RTN4-B) Interacts with GRAMD4 and Regulates TLR9-Mediated Innate Immune Responses. Kimura T, et al. J Immunol, 2015 Jun 1. PMID 25917084
    2. A novel mitochondrial protein DIP mediates E2F1-induced apoptosis independently of p53. Stanelle J, et al. Cell Death Differ, 2005 Apr. PMID 15565177
    3. 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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of toll-like receptor 9 signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of toll-like receptor 9 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cysteine-type endopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    GRAM domain-containing protein 4
    Names
    death-inducing-protein

    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_001427302.2 → NP_001414231.1  GRAM domain-containing protein 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      Related
      ENSRNOP00000022746.8, ENSRNOT00000022746.10

    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_086025.1 Reference GRCr8

      Range
      119030225..119103875
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017595281.3 → XP_017450770.1  GRAM domain-containing protein 4 isoform X1

      UniProtKB/TrEMBL
      A0A8I6GKJ8, F1LYJ8
      Conserved Domains (2) summary
      PRK09510
      Location:96 → 153
      tolA; cell envelope integrity inner membrane protein TolA; Provisional
      cd13221
      Location:464 → 569
      PH-GRAM_GRAMDC4; GRAM domain-containing protein 4 (GRAMDC4) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain

    2. XM_017595282.3 → XP_017450771.1  GRAM domain-containing protein 4 isoform X1

      UniProtKB/TrEMBL
      A0A8I6GKJ8, F1LYJ8
      Related
      ENSRNOP00000094040.2, ENSRNOT00000095265.2
      Conserved Domains (2) summary
      PRK09510
      Location:96 → 153
      tolA; cell envelope integrity inner membrane protein TolA; Provisional
      cd13221
      Location:464 → 569
      PH-GRAM_GRAMDC4; GRAM domain-containing protein 4 (GRAMDC4) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain

    3. XM_039080319.2 → XP_038936247.1  GRAM domain-containing protein 4 isoform X1

      UniProtKB/TrEMBL
      A0A8I6GKJ8, F1LYJ8
      Related
      ENSRNOP00000102987.1, ENSRNOT00000172490.1
      Conserved Domains (2) summary
      PRK09510
      Location:96 → 153
      tolA; cell envelope integrity inner membrane protein TolA; Provisional
      cd13221
      Location:464 → 569
      PH-GRAM_GRAMDC4; GRAM domain-containing protein 4 (GRAMDC4) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain
    Nucleotide Protein Strain
    Heading Accession and Version

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