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    Sec16b SEC16 homolog B, endoplasmic reticulum export factor [ Mus musculus (house mouse) ]

    Gene ID: 89867, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Sec16bprovided by MGI
    Official Full Name
    SEC16 homolog B, endoplasmic reticulum export factorprovided by MGI
    Primary source
    MGI:MGI:2148802
    See related
    Ensembl:ENSMUSG00000026589 AllianceGenome:MGI:2148802
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Rgpr; Lztr2; Rgpr-p117
    Summary
    Predicted to be involved in Golgi organization and protein localization to endoplasmic reticulum exit site. Predicted to act upstream of or within peroxisome organization; protein transport; and vesicle-mediated transport. 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. Is expressed in dorsal root ganglion; forelimb digit mesenchyme; hindlimb; jaw; and musculoskeletal system. Orthologous to several human genes including CRYZL2P-SEC16B (CRYZL2P-SEC16B readthrough). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in liver adult (RPKM 13.8), duodenum adult (RPKM 10.6) and 17 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Sec16b in Genome Data Viewer
    Location:
    1 H1; 1 68.0 cM
    Exon count:
    33
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (157334303..157395995)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (157506733..157568425)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene crystallin zeta like 2 Neighboring gene predicted gene, 57801 Neighboring gene predicted gene 15486 Neighboring gene STARR-positive B cell enhancer mm9_chr1:159480150-159480450 Neighboring gene predicted gene, 30903 Neighboring gene ribosomal protein L19 pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Intestinal SEC16B modulates obesity by regulating chylomicron metabolism. Shi R, et al. Mol Metab, 2023 Apr. PMID 36796587, Free PMC Article
    2. Transcriptional regulation of the ER stress-inducible gene Sec16B in Neuro2a cells. Oh-Hashi K, et al. Mol Cell Biochem, 2021 Jan. PMID 32815086
    3. Molecular cloning and sequencing of the cDNA coding for a novel regucalcin gene promoter region-related protein in rat, mouse and human liver. Misawa H, et al. Int J Mol Med, 2001 Nov. PMID 11605020
    4. Prediction of the coding sequences of mouse homologues of KIAA gene: IV. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Jun 30. PMID 15368895
    5. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Intestinal SEC16B modulates obesity by regulating chylomicron metabolism.
      Title: Intestinal SEC16B modulates obesity by regulating chylomicron metabolism.
    2. Transcriptional regulation of the ER stress-inducible gene Sec16B in Neuro2a cells.
      Title: Transcriptional regulation of the ER stress-inducible gene Sec16B in Neuro2a cells.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (3)  1 citation
    • Endonuclease-mediated (3) 

    Pathways from PubChem

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    General gene information

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    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    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
    		  
    acts_upstream_of_or_within peroxisome organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein localization to endoplasmic reticulum exit site IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within vesicle-mediated 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 apparatus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum 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 intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protein transport protein Sec16B
    Names
    SEC16 homolog B
    leucine zipper transcription regulator 2
    protein SEC16 homolog B
    regucalcin gene promoter region-related protein p117
    regucalcin gene promotor region related 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_001159986.1 → NP_001153458.1  protein transport protein Sec16B

      See identical proteins and their annotated locations for NP_001153458.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same protein.
      Source sequence(s)
      AB063356, AK173302, CO043178
      Consensus CDS
      CCDS15400.1
      UniProtKB/Swiss-Prot
      E9QL61, Q69Z64, Q6PCR8, Q91XT4
      Related
      ENSMUSP00000107329.2, ENSMUST00000111700.8
      Conserved Domains (2) summary
      cd09233
      Location:319 → 675
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
      PHA03307
      Location:674 → 1027
      PHA03307; transcriptional regulator ICP4; Provisional

    2. NM_033354.3 → NP_203505.3  protein transport protein Sec16B

      See identical proteins and their annotated locations for NP_203505.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Variants 1 and 2 both encode the same protein.
      Source sequence(s)
      AK173302, BY151383, CO043178
      Consensus CDS
      CCDS15400.1
      UniProtKB/Swiss-Prot
      E9QL61, Q69Z64, Q6PCR8, Q91XT4
      Related
      ENSMUSP00000083300.3, ENSMUST00000086130.9
      Conserved Domains (2) summary
      cd09233
      Location:319 → 675
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
      PHA03307
      Location:674 → 1027
      PHA03307; transcriptional regulator ICP4; Provisional

    RNA

    1. NR_027641.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate 5' UTR exon compared to variant 1. This creates a nonoverlapping upstream ORF (uORF) with a very strong Kozak signal that could encode a protein of 46 aa. Although the Kozak signal of the original ORF also has a strong Kozak signal, the signal for the uORF is stronger and is likely to prevent translation from the original ORF. Therefore, this transcript is a candidate for nonsense-mediated mRNA decay (NMD) and is not likely to encode a protein.
      Source sequence(s)
      AK173302, BY151383, CO043178

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000067.7 Reference GRCm39 C57BL/6J

      Range
      157334303..157395995
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036154459.1 → XP_036010352.1  protein transport protein Sec16B isoform X1

      UniProtKB/Swiss-Prot
      E9QL61, Q69Z64, Q6PCR8, Q91XT4
      Conserved Domains (2) summary
      cd09233
      Location:319 → 675
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
      PHA03307
      Location:674 → 1027
      PHA03307; transcriptional regulator ICP4; Provisional

    2. XM_006497049.2 → XP_006497112.1  protein transport protein Sec16B isoform X2

      Conserved Domains (2) summary
      cd09233
      Location:225 → 581
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
      PHA03307
      Location:580 → 933
      PHA03307; transcriptional regulator ICP4; Provisional

    3. XM_036154460.1 → XP_036010353.1  protein transport protein Sec16B isoform X3

      Conserved Domains (1) summary
      cd09233
      Location:319 → 546
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16

    4. XM_036154461.1 → XP_036010354.1  protein transport protein Sec16B isoform X3

      Conserved Domains (1) summary
      cd09233
      Location:319 → 546
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16

    5. XM_017312983.2 → XP_017168472.1  protein transport protein Sec16B isoform X1

      UniProtKB/Swiss-Prot
      E9QL61, Q69Z64, Q6PCR8, Q91XT4
      Conserved Domains (2) summary
      cd09233
      Location:319 → 675
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
      PHA03307
      Location:674 → 1027
      PHA03307; transcriptional regulator ICP4; Provisional
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q91XT4.3 GenPept UniProtKB/Swiss-Prot:Q91XT4

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