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    Ergic3 ERGIC and golgi 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 296306, updated on 9-May-2024

    Summary

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    Official Symbol
    Ergic3provided by RGD
    Official Full Name
    ERGIC and golgi 3provided by RGD
    Primary source
    RGD:1308144
    See related
    Ensembl:ENSRNOG00000031085 AllianceGenome:RGD:1308144
    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
    Sdbcag84
    Summary
    Predicted to be involved in endoplasmic reticulum to Golgi vesicle-mediated transport and retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum. Predicted to be located in endoplasmic reticulum-Golgi intermediate compartment membrane. Predicted to be active in COPII-coated ER to Golgi transport vesicle; endoplasmic reticulum; and membrane. Predicted to be integral component of Golgi membrane and integral component of endoplasmic reticulum membrane. Orthologous to human ERGIC3 (ERGIC and golgi 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Liver (RPKM 348.6), Kidney (RPKM 327.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ergic3 in Genome Data Viewer
    Location:
    3q42
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (164985108..164994897)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (144525059..144534813)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (151553567..151563318)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene growth differentiation factor 5 Neighboring gene centrosomal protein 250 Neighboring gene similar to human chromosome 20 open reading frame 173 Neighboring gene fer-1-like family member 4 Neighboring gene sperm associated antigen 4 Neighboring gene copine 1

    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. Endoplasmic reticulum-Golgi intermediate compartment protein 3 knockdown suppresses lung cancer through endoplasmic reticulum stress-induced autophagy. Hong SH, et al. Oncotarget, 2016 Oct 4. PMID 27588471, Free PMC Article
    2. Suppression subtractive hybridization identified differentially expressed genes in lung adenocarcinoma: ERGIC3 as a novel lung cancer-related gene. Wu M, et al. BMC Cancer, 2013 Feb 1. PMID 23374247, Free PMC Article
    3. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888
    4. 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 endoplasmic reticulum to Golgi vesicle-mediated transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in endoplasmic reticulum to Golgi vesicle-mediated transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of intracellular protein transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in COPII-coated ER to Golgi transport vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in Golgi membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum-Golgi intermediate compartment membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of retrograde transporter complex, Golgi to ER ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of transporter complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    endoplasmic reticulum-Golgi intermediate compartment protein 3
    Names
    serologically defined breast cancer antigen 84

    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_001106533.2 → NP_001100003.1  endoplasmic reticulum-Golgi intermediate compartment protein 3 isoform 1

      See identical proteins and their annotated locations for NP_001100003.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      A6KI75, D3ZU83
      Related
      ENSRNOP00000080486.1, ENSRNOT00000106913.1
      Conserved Domains (2) summary
      pfam07970
      Location:145 → 363
      COPIIcoated_ERV; Endoplasmic reticulum vesicle transporter
      pfam13850
      Location:7 → 97
      ERGIC_N; Endoplasmic Reticulum-Golgi Intermediate Compartment (ERGIC)

    2. NM_001430229.1 → NP_001417158.1  endoplasmic reticulum-Golgi intermediate compartment protein 3 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003

    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_086021.1 Reference GRCr8

      Range
      164985108..164994897
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006235314.4 → XP_006235376.2  endoplasmic reticulum-Golgi intermediate compartment protein 3 isoform X1

      UniProtKB/TrEMBL
      D3ZU83
      Conserved Domains (2) summary
      pfam07970
      Location:145 → 368
      COPIIcoated_ERV; Endoplasmic reticulum vesicle transporter
      pfam13850
      Location:7 → 97
      ERGIC_N; Endoplasmic Reticulum-Golgi Intermediate Compartment (ERGIC)
    Nucleotide Protein Strain
    Heading Accession and Version

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