U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    Sec16b SEC16 homolog B, endoplasmic reticulum export factor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 89868, updated on 2-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Sec16bprovided by RGD
    Official Full Name
    SEC16 homolog B, endoplasmic reticulum export factorprovided by RGD
    Primary source
    RGD:621658
    See related
    EnsemblRapid:ENSRNOG00000005229 AllianceGenome:RGD:621658
    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
    Rgpr; Lztr2
    Summary
    Predicted to be involved in several processes, including peroxisome fission; positive regulation of protein exit from endoplasmic reticulum; and protein localization to endoplasmic reticulum exit site. Predicted to be located in intracellular membrane-bounded organelle. Predicted to be active in ER to Golgi transport vesicle membrane and endoplasmic reticulum exit site. Orthologous to several human genes including SEC16B (SEC16 homolog B, endoplasmic reticulum export factor). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Liver (RPKM 145.8), Heart (RPKM 37.1) and 6 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Sec16b in Genome Data Viewer
    Location:
    13q22
    Exon count:
    32
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (72206778..72260733)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (69665757..69727199)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (75153074..75216941)

    Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 2810025M15 gene like Neighboring gene uncharacterized LOC134481518 Neighboring gene crystallin zeta like 2 Neighboring gene ATP synthase F(0) complex subunit C2, mitochondrial-like Neighboring gene small nucleolar RNA SNORA48 Neighboring gene uncharacterized LOC120096293 Neighboring gene large ribosomal subunit protein eL28-like

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. The overexpressed transcription factor RGPR-p117 suppresses the proliferation of normal rat kidney proximal tubular epithelial NRK-52E cells: Involvement of diverse signaling pathways. Yamaguchi M, et al. Life Sci, 2022 Oct 1. PMID 35835253
    2. Overexpression of RGPR-p117 suppresses apoptotic cell death and its related gene expression in cloned normal rat kidney proximal tubular epithelial NRK52E cells. Yamaguchi M, et al. Int J Mol Med, 2007 Oct. PMID 17786289
    3. Overexpression of RGPR-p117 induces the decrease in protein and DNA contents in cloned normal rat kidney proximal tubular epithelial NRK52E cells. Tomono S, et al. Int J Mol Med, 2007 Jul. PMID 17549392
    4. Nuclear localization of a novel protein, RGPR-p117, in cloned normal rat kidney proximal tubular epithelial cells. Sawada N, et al. Int J Mol Med, 2005 Nov. PMID 16211248
    5. Overexpression of RGPR-p117 enhances regucalcin gene promoter activity in cloned normal rat kidney proximal tubular epithelial cells: involvement of TTGGC motif. Sawada N, et al. J Cell Biochem, 2006 Oct 1. PMID 16676356

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The overexpressed transcription factor RGPR-p117 suppresses the proliferation of normal rat kidney proximal tubular epithelial NRK-52E cells: Involvement of diverse signaling pathways.
      Title: The overexpressed transcription factor RGPR-p117 suppresses the proliferation of normal rat kidney proximal tubular epithelial NRK-52E cells: Involvement of diverse signaling pathways.
    2. This study demonstrates that overexpression of RGPR-p117 has a suppressive effect on cell death and apoptosis.
      Title: Overexpression of RGPR-p117 suppresses apoptotic cell death and its related gene expression in cloned normal rat kidney proximal tubular epithelial NRK52E cells.
    3. RGPR-p117 is localized in the nucleus of kidney cells, and may be involved in gene expression.
      Title: Nuclear localization of a novel protein, RGPR-p117, in cloned normal rat kidney proximal tubular epithelial cells.
    4. This study demonstrates that overexpression of RGPR-p117 enhances the expression of regucalcin mRNA and its protein level in NRK52E cells. RGPR-p117 may play a role as a transcriptional factor.
      Title: Overexpression of RGPR-p117 enhances regucalcin gene expression in cloned normal rat kidney proximal tubular epithelial cells.
    5. determined expression of mRNA in liver with change in sex, age and fasting; did not directly bind to the regucalcin TTGGC motif
      Title: Novel protein RGPR-p117: the gene expression in physiologic state and the binding activity to regucalcin gene promoter region in rat liver.
    6. RGPR-p117 can enhance the regucalcin promoter activity which is related to the NF-1 consensus sequences including TTGGC motif, and its enhancing effect is partly mediated through phosphorylation and dephosphorylation
      Title: Overexpression of RGPR-p117 enhances regucalcin gene promoter activity in cloned normal rat kidney proximal tubular epithelial cells: involvement of TTGGC motif.
    7. Overexpression of Rgpr induces the decrease in protein and DNA contents in cloned normal kidney proximal tubular epithelial NRK52E cells.
      Title: Overexpression of RGPR-p117 induces the decrease in protein and DNA contents in cloned normal rat kidney proximal tubular epithelial NRK52E cells.
    Submit: New GeneRIF Correction

    Pathways from PubChem

    Go to the top of the page

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in COPII vesicle coating IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in Golgi organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in autophagy IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in endoplasmic reticulum organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endoplasmic reticulum to Golgi vesicle-mediated transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endoplasmic reticulum to Golgi vesicle-mediated transport ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in peroxisome fission ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in peroxisome organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of protein exit from endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to endoplasmic reticulum exit site IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in ER to Golgi transport vesicle 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 exit site IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum exit site ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum exit site ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    protein transport protein Sec16B
    Names
    RGPR-p117
    leucine zipper transcription regulator 2
    protein SEC16 homolog B
    regucalcin gene promoter region related protein
    regucalcin gene promoter region-related protein p117
    regucalcin gene promotor region related protein

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_053571.2 → NP_446023.2  protein transport protein Sec16B

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/Swiss-Prot
      Q75N33, Q925T1
      Conserved Domains (1) summary
      cd09233
      Location:319 → 675
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16

    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_086031.1 Reference GRCr8

      Range
      72206778..72260733
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063272652.1 → XP_063128722.1  protein transport protein Sec16B isoform X1

    2. XM_063272658.1 → XP_063128728.1  protein transport protein Sec16B isoform X2

      UniProtKB/Swiss-Prot
      Q75N33, Q925T1
      Related
      ENSRNOP00000046286.3, ENSRNOT00000044008.7

    3. XM_063272660.1 → XP_063128730.1  protein transport protein Sec16B isoform X4

    4. XM_039091144.2 → XP_038947072.1  protein transport protein Sec16B isoform X1

      Conserved Domains (1) summary
      cd09233
      Location:319 → 675
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16

    5. XM_063272653.1 → XP_063128723.1  protein transport protein Sec16B isoform X1

    6. XM_063272654.1 → XP_063128724.1  protein transport protein Sec16B isoform X1

    7. XM_063272655.1 → XP_063128725.1  protein transport protein Sec16B isoform X1

    8. XM_063272656.1 → XP_063128726.1  protein transport protein Sec16B isoform X1

    9. XM_063272657.1 → XP_063128727.1  protein transport protein Sec16B isoform X1

    10. XM_039091145.2 → XP_038947073.1  protein transport protein Sec16B isoform X1

      Conserved Domains (1) summary
      cd09233
      Location:319 → 675
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16

    11. XM_063272659.1 → XP_063128729.1  protein transport protein Sec16B isoform X2

      UniProtKB/Swiss-Prot
      Q75N33, Q925T1

    12. XM_039091147.2 → XP_038947075.1  protein transport protein Sec16B isoform X3

      UniProtKB/TrEMBL
      A6ID32
      Conserved Domains (1) summary
      cd09233
      Location:211 → 567
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q75N33.1 GenPept UniProtKB/Swiss-Prot:Q75N33

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous