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

Gene ID: 89867, updated on 21-Apr-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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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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