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    Dcaf11 DDB1 and CUL4 associated factor 11 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 305895, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Dcaf11provided by RGD
    Official Full Name
    DDB1 and CUL4 associated factor 11provided by RGD
    Primary source
    RGD:1311288
    See related
    EnsemblRapid:ENSRNOG00000018825 AllianceGenome:RGD:1311288
    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
    Wdr23
    Summary
    Predicted to be involved in proteasome-mediated ubiquitin-dependent protein catabolic process. Predicted to act upstream of or within several processes, including exploration behavior; protein stabilization; and respiratory system process. Predicted to be located in nucleoplasm. Predicted to be part of Cul4-RING E3 ubiquitin ligase complex. Orthologous to human DCAF11 (DDB1 and CUL4 associated factor 11). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Liver (RPKM 955.1), Heart (RPKM 655.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Dcaf11 in Genome Data Viewer
    Location:
    15p13
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (33015370..33027407)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (29046744..29057450)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (34233840..34244512)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene neural retina leucine zipper Neighboring gene uncharacterized LOC120096988 Neighboring gene phosphoenolpyruvate carboxykinase 2 (mitochondrial) Neighboring gene uncharacterized LOC102552219 Neighboring gene fat storage-inducing transmembrane protein 1

    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. A family of diverse Cul4-Ddb1-interacting proteins includes Cdt2, which is required for S phase destruction of the replication factor Cdt1. Jin J, et al. Mol Cell, 2006 Sep 1. PMID 16949367
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC94719, MGC109419

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within cognition ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within exploration behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within memory ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within protein stabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within respiratory system process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within response to oxidative stress ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of Cul4-RING E3 ubiquitin ligase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of Cul4-RING E3 ubiquitin ligase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of Cul4-RING E3 ubiquitin ligase complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    DDB1- and CUL4-associated factor 11
    Names
    WD repeat domain 23
    WD repeat-containing protein 23

    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_001009686.2 → NP_001009686.1  DDB1- and CUL4-associated factor 11

      See identical proteins and their annotated locations for NP_001009686.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) is the protein-coding variant.
      Source sequence(s)
      BC091364
      UniProtKB/Swiss-Prot
      Q5M9G8
      UniProtKB/TrEMBL
      A0A8L2QQZ0, A6KH09
      Conserved Domains (2) summary
      sd00039
      Location:221 → 263
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:180 → 511
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    RNA

    1. NR_073087.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate 5' exon structure compared to variant 1. This variant is represented as non-coding due to the presence of an upstream ORF that is predicted to interfere with translation of the longest ORF; translation of the upstream ORF renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      JAXUCZ010000015

    2. NR_073088.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate 5' and internal exon structure compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      JAXUCZ010000015

    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
      33015370..33027407
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017599685.3 → XP_017455174.1  DDB1- and CUL4-associated factor 11 isoform X1

      UniProtKB/Swiss-Prot
      Q5M9G8
      UniProtKB/TrEMBL
      A0A8L2QQZ0, A6KH09
      Conserved Domains (2) summary
      sd00039
      Location:221 → 263
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:180 → 511
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    2. XM_063274253.1 → XP_063130323.1  DDB1- and CUL4-associated factor 11 isoform X2

      UniProtKB/TrEMBL
      A0A8L2QQZ0, A6KH10

    3. XM_006251971.5 → XP_006252033.1  DDB1- and CUL4-associated factor 11 isoform X1

      See identical proteins and their annotated locations for XP_006252033.1

      UniProtKB/Swiss-Prot
      Q5M9G8
      UniProtKB/TrEMBL
      A0A8L2QQZ0, A6KH09
      Related
      ENSRNOP00000074435.1, ENSRNOT00000077584.3
      Conserved Domains (2) summary
      sd00039
      Location:221 → 263
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:180 → 511
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    4. XM_039093298.2 → XP_038949226.1  DDB1- and CUL4-associated factor 11 isoform X1

      UniProtKB/Swiss-Prot
      Q5M9G8
      UniProtKB/TrEMBL
      A0A8L2QQZ0, A6KH09
      Conserved Domains (2) summary
      sd00039
      Location:221 → 263
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:180 → 511
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    5. XM_063274254.1 → XP_063130324.1  DDB1- and CUL4-associated factor 11 isoform X2

      UniProtKB/TrEMBL
      A0A8L2QQZ0, A6KH10

    6. XM_039093299.2 → XP_038949227.1  DDB1- and CUL4-associated factor 11 isoform X1

      UniProtKB/Swiss-Prot
      Q5M9G8
      UniProtKB/TrEMBL
      A0A8L2QQZ0, A6KH09
      Conserved Domains (2) summary
      sd00039
      Location:221 → 263
      7WD40; WD40 repeat [structural motif]
      cl29593
      Location:180 → 511
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    7. XM_063274255.1 → XP_063130325.1  DDB1- and CUL4-associated factor 11 isoform X2

      UniProtKB/TrEMBL
      A0A8L2QQZ0, A6KH10
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5M9G8.1 GenPept UniProtKB/Swiss-Prot:Q5M9G8

    Gene LinkOut

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