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    Sec24b SEC24 homolog B, COPII coat complex component [ Rattus norvegicus (Norway rat) ]

    Gene ID: 295461, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Sec24bprovided by RGD
    Official Full Name
    SEC24 homolog B, COPII coat complex componentprovided by RGD
    Primary source
    RGD:1309358
    See related
    EnsemblRapid:ENSRNOG00000023373 AllianceGenome:RGD:1309358
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable SNARE binding activity and zinc ion binding activity. Predicted to be involved in COPII-coated vesicle cargo loading. Predicted to act upstream of or within several processes, including artery morphogenesis; nervous system development; and regulation of establishment of planar polarity involved in neural tube closure. Located in COPII-coated ER to Golgi transport vesicle. Orthologous to human SEC24B (SEC24 homolog B, COPII coat complex component). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 70.7), Lung (RPKM 70.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sec24b in Genome Data Viewer
    Location:
    2q43
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (221236897..221306986, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (218562670..218632753, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (230286886..230356887, complement)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene caspase 6 Neighboring gene mitochondrial calcium uniporter dominant negative subunit beta Neighboring gene transfer RNA lysine (anticodon UUU) Neighboring gene collagen type XXV alpha 1 chain Neighboring gene U4 spliceosomal RNA

    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
    • 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. Sec24 proteins and sorting at the endoplasmic reticulum. Pagano A, et al. J Biol Chem, 1999 Mar 19. PMID 10075675
    2. SEC24A deficiency lowers plasma cholesterol through reduced PCSK9 secretion. Chen XW, et al. Elife, 2013 Apr 9. PMID 23580231, Free PMC Article
    3. Selective export of human GPI-anchored proteins from the endoplasmic reticulum. Bonnon C, et al. J Cell Sci, 2010 May 15. PMID 20427317
    4. Planar cell polarity defects and defective Vangl2 trafficking in mutants for the COPII gene Sec24b. Wansleeben C, et al. Development, 2010 Apr. PMID 20215345
    5. Sec24b selectively sorts Vangl2 to regulate planar cell polarity during neural tube closure. Merte J, et al. Nat Cell Biol, 2010 Jan. PMID 19966784, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables SNARE binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables zinc ion binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables zinc ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in COPII-coated vesicle cargo loading IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in COPII-coated vesicle cargo loading ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within aorta morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within auditory receptor cell morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within auditory receptor cell stereocilium organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within circulatory system development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within cochlear nucleus development ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within coronary artery morphogenesis 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 intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within lung lobe morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within lung morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neural tube closure ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within outflow tract morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within pulmonary artery morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of cargo loading into COPII-coated vesicle ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of establishment of planar polarity involved in neural tube closure ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of COPII vesicle coat IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of COPII vesicle coat ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in COPII-coated ER to Golgi transport vesicle IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endoplasmic reticulum exit site IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protein transport protein Sec24B
    Names
    SEC24 family, member B
    SEC24 related gene family, member B

    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_001106474.1 → NP_001099944.1  protein transport protein Sec24B

      See identical proteins and their annotated locations for NP_001099944.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473952
      UniProtKB/TrEMBL
      A6HVQ9
      Related
      ENSRNOP00000110926.1, ENSRNOT00000168086.1
      Conserved Domains (6) summary
      COG5028
      Location:396 → 1233
      COG5028; Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
      cd01479
      Location:649 → 892
      Sec24-like; Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes ...
      pfam00626
      Location:1113 → 1188
      Gelsolin; Gelsolin repeat
      pfam04810
      Location:576 → 612
      zf-Sec23_Sec24; Sec23/Sec24 zinc finger
      pfam04815
      Location:992 → 1087
      Sec23_helical; Sec23/Sec24 helical domain
      pfam08033
      Location:893 → 977
      Sec23_BS; Sec23/Sec24 beta-sandwich domain

    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_086020.1 Reference GRCr8

      Range
      221236897..221306986 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063281665.1 → XP_063137735.1  protein transport protein Sec24B isoform X9

    2. XM_039102107.2 → XP_038958035.1  protein transport protein Sec24B isoform X2

      Conserved Domains (2) summary
      PHA03247
      Location:2 → 483
      PHA03247; large tegument protein UL36; Provisional
      COG5028
      Location:579 → 1284
      COG5028; Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]

    3. XM_008761458.3 → XP_008759680.1  protein transport protein Sec24B isoform X5

      Conserved Domains (5) summary
      cd01479
      Location:658 → 901
      Sec24-like; Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes ...
      pfam00626
      Location:1122 → 1197
      Gelsolin; Gelsolin repeat
      pfam04810
      Location:585 → 621
      zf-Sec23_Sec24; Sec23/Sec24 zinc finger
      pfam04815
      Location:1001 → 1096
      Sec23_helical; Sec23/Sec24 helical domain
      pfam08033
      Location:902 → 986
      Sec23_BS; Sec23/Sec24 beta-sandwich domain

    4. XM_039102106.2 → XP_038958034.1  protein transport protein Sec24B isoform X1

      Conserved Domains (2) summary
      PHA03247
      Location:2 → 483
      PHA03247; large tegument protein UL36; Provisional
      COG5028
      Location:448 → 1285
      COG5028; Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]

    5. XM_063281664.1 → XP_063137734.1  protein transport protein Sec24B isoform X6

    6. XM_039102108.2 → XP_038958036.1  protein transport protein Sec24B isoform X3

      Related
      ENSRNOP00000103705.1, ENSRNOT00000124463.1
      Conserved Domains (2) summary
      PHA03247
      Location:2 → 473
      PHA03247; large tegument protein UL36; Provisional
      COG5028
      Location:438 → 1275
      COG5028; Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]

    7. XM_017590788.2 → XP_017446277.1  protein transport protein Sec24B isoform X8

    8. XM_006233276.4 → XP_006233338.1  protein transport protein Sec24B isoform X7

      UniProtKB/TrEMBL
      A0A8I6AF73
      Related
      ENSRNOP00000086925.1, ENSRNOT00000109543.2
      Conserved Domains (6) summary
      COG5028
      Location:371 → 1208
      COG5028; Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
      cd01479
      Location:624 → 867
      Sec24-like; Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes ...
      pfam00626
      Location:1088 → 1163
      Gelsolin; Gelsolin repeat
      pfam04810
      Location:551 → 587
      zf-Sec23_Sec24; Sec23/Sec24 zinc finger
      pfam04815
      Location:967 → 1062
      Sec23_helical; Sec23/Sec24 helical domain
      pfam08033
      Location:868 → 952
      Sec23_BS; Sec23/Sec24 beta-sandwich domain

    9. XM_006233275.4 → XP_006233337.1  protein transport protein Sec24B isoform X4

      UniProtKB/TrEMBL
      D3ZW15
      Related
      ENSRNOP00000037163.5, ENSRNOT00000038509.7
      Conserved Domains (6) summary
      COG5028
      Location:406 → 1243
      COG5028; Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
      cd01479
      Location:659 → 902
      Sec24-like; Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes ...
      pfam00626
      Location:1123 → 1198
      Gelsolin; Gelsolin repeat
      pfam04810
      Location:586 → 622
      zf-Sec23_Sec24; Sec23/Sec24 zinc finger
      pfam04815
      Location:1002 → 1097
      Sec23_helical; Sec23/Sec24 helical domain
      pfam08033
      Location:903 → 987
      Sec23_BS; Sec23/Sec24 beta-sandwich domain

    10. XM_006233277.5 → XP_006233339.1  protein transport protein Sec24B isoform X10

      UniProtKB/TrEMBL
      A0A8I6GKR9
      Related
      ENSRNOP00000093683.1, ENSRNOT00000104158.2
      Conserved Domains (6) summary
      COG5028
      Location:313 → 1150
      COG5028; Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
      cd01479
      Location:566 → 809
      Sec24-like; Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes ...
      pfam00626
      Location:1030 → 1105
      Gelsolin; Gelsolin repeat
      pfam04810
      Location:493 → 529
      zf-Sec23_Sec24; Sec23/Sec24 zinc finger
      pfam04815
      Location:909 → 1004
      Sec23_helical; Sec23/Sec24 helical domain
      pfam08033
      Location:810 → 894
      Sec23_BS; Sec23/Sec24 beta-sandwich domain
    Nucleotide Protein Strain
    Heading Accession and Version

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