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    Entr1 endosome associated trafficking regulator 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 306322, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Entr1provided by RGD
    Official Full Name
    endosome associated trafficking regulator 1provided by RGD
    Primary source
    RGD:1305930
    See related
    EnsemblRapid:ENSRNOG00000018876 AllianceGenome:RGD:1305930
    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
    Sdccag3
    Summary
    Predicted to be involved in several processes, including endocytic recycling; positive regulation of cilium assembly; and positive regulation of protein localization to cilium. Predicted to be located in endosome. Predicted to be part of retromer complex. Predicted to be active in endosome; microtubule organizing center; and midbody. Orthologous to human ENTR1 (endosome associated trafficking regulator 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Testes (RPKM 411.0), Kidney (RPKM 271.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Entr1 in Genome Data Viewer
    Location:
    3p13
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (29599059..29605780, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (9200967..9207688, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (3827498..3834219, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene DNL-type zinc finger Neighboring gene caspase recruitment domain family, member 9 Neighboring gene small nuclear RNA activating complex, polypeptide 4 Neighboring gene peptidase, mitochondrial processing subunit alpha Neighboring gene inositol polyphosphate-5-phosphatase E Neighboring gene SEC16 homolog A, endoplasmic reticulum export factor

    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. The serologically defined colon cancer antigen-3 (SDCCAG3) is involved in the regulation of ciliogenesis. Yu F, et al. Sci Rep, 2016 Oct 21. PMID 27767179, Free PMC Article
    2. The serologically defined colon cancer antigen-3 interacts with the protein tyrosine phosphatase PTPN13 and is involved in the regulation of cytokinesis. Hagemann N, et al. Oncogene, 2013 Sep 26. PMID 23108400
    3. Identification of molecular heterogeneity in SNX27-retromer-mediated endosome-to-plasma-membrane recycling. McGough IJ, et al. J Cell Sci, 2014 Nov 15. PMID 25278552, 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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in endocytic recycling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cilium assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of cilium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of protein localization to cilium IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of protein localization to cilium ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cytokinesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of cytokinesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in centrosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in ciliary basal body IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in ciliary basal body ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in early endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in early endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in midbody IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in midbody ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in recycling endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in recycling endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of retromer complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    endosome-associated-trafficking regulator 1
    Names
    serologically defined colon cancer antigen 3

    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_001013135.2 → NP_001013153.2  endosome-associated-trafficking regulator 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      A6JTE3, F1LMK3
      Related
      ENSRNOP00000058381.3, ENSRNOT00000061669.6
      Conserved Domains (2) summary
      TIGR02168
      Location:251 → 373
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      NF033928
      Location:335 → 431
      alph_xenorhab_A; alpha-xenorhabdolysin family binary toxin subunit A

    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
      29599059..29605780 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063283534.1 → XP_063139604.1  endosome-associated-trafficking regulator 1 isoform X8

    2. XM_006233681.5 → XP_006233743.1  endosome-associated-trafficking regulator 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I6A2U5, A6JTE3
      Related
      ENSRNOP00000084886.1, ENSRNOT00000105263.2
      Conserved Domains (1) summary
      cl23720
      Location:228 → 335
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

    3. XM_039104801.2 → XP_038960729.1  endosome-associated-trafficking regulator 1 isoform X7

    4. XM_006233682.5 → XP_006233744.1  endosome-associated-trafficking regulator 1 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AUN1
      Related
      ENSRNOP00000096122.1, ENSRNOT00000102669.2
      Conserved Domains (1) summary
      cl23720
      Location:201 → 308
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

    5. XM_039104800.2 → XP_038960728.1  endosome-associated-trafficking regulator 1 isoform X6

      Conserved Domains (2) summary
      TIGR02168
      Location:170 → 292
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      NF033928
      Location:254 → 350
      alph_xenorhab_A; alpha-xenorhabdolysin family binary toxin subunit A

    6. XM_039104798.2 → XP_038960726.1  endosome-associated-trafficking regulator 1 isoform X3

      Conserved Domains (2) summary
      TIGR02168
      Location:193 → 315
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      NF033928
      Location:277 → 373
      alph_xenorhab_A; alpha-xenorhabdolysin family binary toxin subunit A

    7. XM_039104802.2 → XP_038960730.1  endosome-associated-trafficking regulator 1 isoform X10

      UniProtKB/TrEMBL
      A0A8I6ARC0

    8. XM_006233685.5 → XP_006233747.1  endosome-associated-trafficking regulator 1 isoform X5

      See identical proteins and their annotated locations for XP_006233747.1

      UniProtKB/TrEMBL
      A0A0G2JTN0
      Related
      ENSRNOP00000068774.2, ENSRNOT00000089705.3
      Conserved Domains (1) summary
      cl23720
      Location:178 → 285
      RILP-like; Rab interacting lysosomal protein-like 1 and 2 (Rilpl1 and Rilpl2)

    9. XM_039104799.2 → XP_038960727.1  endosome-associated-trafficking regulator 1 isoform X4

      Conserved Domains (2) summary
      TIGR02168
      Location:180 → 302
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      NF033928
      Location:264 → 360
      alph_xenorhab_A; alpha-xenorhabdolysin family binary toxin subunit A

    10. XM_063283535.1 → XP_063139605.1  endosome-associated-trafficking regulator 1 isoform X9

    RNA

    1. XR_005501844.2 RNA Sequence

    2. XR_010064608.1 RNA Sequence

    3. XR_010064607.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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