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    ergic3 ERGIC and golgi 3 [ Danio rerio (zebrafish) ]

    Gene ID: 393990, updated on 9-Dec-2024

    Summary

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    Official Symbol
    ergic3provided by ZNC
    Official Full Name
    ERGIC and golgi 3provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-795
    See related
    Ensembl:ENSDARG00000038074 AllianceGenome:ZFIN:ZDB-GENE-040426-795
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    sdbcag84; zgc:55762; zgc:113959
    Summary
    Predicted to be involved in endoplasmic reticulum to Golgi vesicle-mediated transport and retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum. Predicted to act upstream of or within vesicle-mediated transport. Predicted to be located in Golgi apparatus and endoplasmic reticulum-Golgi intermediate compartment membrane. Predicted to be active in COPII-coated ER to Golgi transport vesicle; Golgi membrane; and endoplasmic reticulum membrane. Orthologous to human ERGIC3 (ERGIC and golgi 3). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See ergic3 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (50393093..50414197)
    105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (50393874..50414978)

    Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137496022 Neighboring gene cytochrome c-1 Neighboring gene reactive oxygen species modulator 1 Neighboring gene myelocytomatosis oncogene homolog Neighboring gene uncharacterized LOC137495893

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. BAC Recombineering of the Agouti Loci from Spotted Gar and Zebrafish Reveals the Evolutionary Ancestry of Dorsal-Ventral Pigment Asymmetry in Fish. Cal L, et al. J Exp Zool B Mol Dev Evol, 2017 Nov. PMID 28544213, Free PMC Article
    2. Integrative view of α2,3-sialyltransferases (ST3Gal) molecular and functional evolution in deuterostomes: significance of lineage-specific losses. Petit D, et al. Mol Biol Evol, 2015 Apr. PMID 25534026, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, 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

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC55762, MGC113959

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in endoplasmic reticulum to Golgi vesicle-mediated transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    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
    		  
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in Golgi membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum-Golgi intermediate compartment membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    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_001033105.1 → NP_001028277.1  endoplasmic reticulum-Golgi intermediate compartment protein 3 isoform 1

      See identical proteins and their annotated locations for NP_001028277.1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer protein (isoform 1).
      Source sequence(s)
      BC100125
      UniProtKB/Swiss-Prot
      Q803I2
      Related
      ENSDARP00000055510.2, ENSDART00000055511.4
      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)

    2. NM_201015.1 → NP_957309.1  endoplasmic reticulum-Golgi intermediate compartment protein 3 isoform 2

      See identical proteins and their annotated locations for NP_957309.1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (2) lacks an exon in the coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.
      Source sequence(s)
      BC044474
      UniProtKB/Swiss-Prot
      Q498P7, Q803I2
      UniProtKB/TrEMBL
      B2GQE2
      Related
      ENSDARP00000055501.4, ENSDART00000055502.6
      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)

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007117.7 Reference GRCz11 Primary Assembly

      Range
      50393093..50414197
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q803I2.1 GenPept UniProtKB/Swiss-Prot:Q803I2

    Gene LinkOut

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