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    Cideb cell death-inducing DFFA-like effector b [ Rattus norvegicus (Norway rat) ]

    Gene ID: 364388, updated on 30-Mar-2024

    Summary

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    Official Symbol
    Cidebprovided by RGD
    Official Full Name
    cell death-inducing DFFA-like effector bprovided by RGD
    Primary source
    RGD:1310000
    See related
    Ensembl:ENSRNOG00000020377 AllianceGenome:RGD:1310000
    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
    Summary
    Predicted to enable identical protein binding activity. Involved in bile acid signaling pathway and response to nutrient levels. Predicted to be located in cytosol and perinuclear region of cytoplasm. Biomarker of non-alcoholic fatty liver disease and premature menopause. Orthologous to human CIDEB (cell death inducing DFFA like effector b). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Liver (RPKM 442.3) and Kidney (RPKM 155.4) See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    15p13
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (33222135..33226407, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (29252208..29256482, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (34439844..34444244, complement)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene tRNA methyltransferase activator subunit 11-2, pseudogene 2 Neighboring gene dehydrogenase/reductase 1 Neighboring gene NOP9 nucleolar protein Neighboring gene leukotriene B4 receptor 2 Neighboring gene leukotriene B4 receptor

    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. CideB protein is required for the biogenesis of very low density lipoprotein (VLDL) transport vesicle. Tiwari S, et al. J Biol Chem, 2013 Feb 15. PMID 23297397, Free PMC Article
    2. The hepatitis C virus NS2 protein is an inhibitor of CIDE-B-induced apoptosis. Erdtmann L, et al. J Biol Chem, 2003 May 16. PMID 12595532
    3. Molecular cloning and characterization of CIDE-3, a novel member of the cell-death-inducing DNA-fragmentation-factor (DFF45)-like effector family. Liang L, et al. Biochem J, 2003 Feb 15. PMID 12429024, Free PMC Article
    4. Impaired VLDL assembly: a novel mechanism contributing to hepatic lipid accumulation following ovariectomy and high-fat/high-cholesterol diets? Côté I, et al. Br J Nutr, 2014 Nov 28. PMID 25263431
    5. CIDE, a novel family of cell death activators with homology to the 45 kDa subunit of the DNA fragmentation factor. Inohara N, et al. EMBO J, 1998 May 1. PMID 9564035, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CideB protein is required for the biogenesis of very low density lipoprotein (VLDL) transport vesicle
      Title: CideB protein is required for the biogenesis of very low density lipoprotein (VLDL) transport vesicle.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables lipid transfer activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables molecular adaptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidic acid binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in COPII-coated vesicle cargo loading ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in bile acid signaling pathway IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in execution phase of apoptosis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in intermembrane lipid transfer IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in lipid droplet fusion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in lipid storage ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of apoptotic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of triglyceride metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to nutrient levels IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in very-low-density lipoprotein particle assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of COPII vesicle coat ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in lipid droplet ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in perinuclear region of cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    lipid transferase CIDEB
    Names
    cell death activator CIDE-B
    cell death-inducing DNA fragmentation factor, alpha subunit-like effector 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_001399449.1 → NP_001386378.1  lipid transferase CIDEB

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015
      Related
      ENSRNOP00000027612.5, ENSRNOT00000027612.7
      Conserved Domains (1) summary
      cd06537
      Location:34 → 114
      CIDE_N_B; CIDE_N domain of CIDE-B proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin ...

    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_086033.1 Reference GRCr8

      Range
      33222135..33226407 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001108869.2: Suppressed sequence

      Description
      NM_001108869.2: This RefSeq was removed because currently there is insufficient support for the transcript.
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

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