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    Nfrkb nuclear factor related to kappa B binding protein [ Rattus norvegicus (Norway rat) ]

    Gene ID: 315523, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Nfrkbprovided by RGD
    Official Full Name
    nuclear factor related to kappa B binding proteinprovided by RGD
    Primary source
    RGD:1310558
    See related
    EnsemblRapid:ENSRNOG00000008278 AllianceGenome:RGD:1310558
    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 protease binding activity. Predicted to be involved in several processes, including regulation of embryonic development; regulation of nucleobase-containing compound metabolic process; and telomere maintenance. Predicted to be located in nucleoplasm. Predicted to be part of Ino80 complex. Orthologous to human NFRKB (nuclear factor related to kappaB binding protein). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 132.8), Spleen (RPKM 99.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Nfrkb in Genome Data Viewer
    Location:
    8q13
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (38089574..38121506)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (29831802..29863360)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (32530412..32561955)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene NOP16 nucleolar protein, pseudogene 1 Neighboring gene PR/SET domain 10 Neighboring gene ribosomal protein L32 like 1 Neighboring gene transmembrane protein 45b Neighboring gene uncharacterized LOC134480011 Neighboring gene large ribosomal subunit protein eL21-like

    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. Subunit organization of the human INO80 chromatin remodeling complex: an evolutionarily conserved core complex catalyzes ATP-dependent nucleosome remodeling. Chen L, et al. J Biol Chem, 2011 Apr 1. PMID 21303910, Free PMC Article
    2. The INO80 family of chromatin-remodeling enzymes: regulators of histone variant dynamics. Watanabe S, et al. Cold Spring Harb Symp Quant Biol, 2010. PMID 21502417
    3. Distinct modes of regulation of the Uch37 deubiquitinating enzyme in the proteasome and in the Ino80 chromatin-remodeling complex. Yao T, et al. Mol Cell, 2008 Sep 26. PMID 18922472, Free PMC Article
    4. 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

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables protease binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protease binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA repair ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of telomere maintenance in response to DNA damage ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA repair ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA replication ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA strand elongation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of chromosome organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of embryonic development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in telomere maintenance ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of Ino80 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    nuclear factor related to kappa-B-binding 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_001108133.1 → NP_001101603.1  nuclear factor related to kappa-B-binding protein

      See identical proteins and their annotated locations for NP_001101603.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474007
      UniProtKB/TrEMBL
      A6JYG5
      Conserved Domains (1) summary
      pfam14465
      Location:392 → 476
      NFRKB_winged; NFRKB Winged Helix-like

    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_086026.1 Reference GRCr8

      Range
      38089574..38121506
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006242753.5 → XP_006242815.1  nuclear factor related to kappa-B-binding protein isoform X1

      See identical proteins and their annotated locations for XP_006242815.1

      UniProtKB/TrEMBL
      D4A421
      Related
      ENSRNOP00000011223.6, ENSRNOT00000011223.8
      Conserved Domains (1) summary
      pfam14465
      Location:404 → 488
      NFRKB_winged; NFRKB Winged Helix-like

    2. XM_063265380.1 → XP_063121450.1  nuclear factor related to kappa-B-binding protein isoform X4

    3. XM_006242756.5 → XP_006242818.1  nuclear factor related to kappa-B-binding protein isoform X3

      Conserved Domains (1) summary
      pfam14465
      Location:404 → 488
      NFRKB_winged; NFRKB Winged Helix-like

    4. XM_063265383.1 → XP_063121453.1  nuclear factor related to kappa-B-binding protein isoform X7

    5. XM_063265378.1 → XP_063121448.1  nuclear factor related to kappa-B-binding protein isoform X2

    6. XM_063265382.1 → XP_063121452.1  nuclear factor related to kappa-B-binding protein isoform X6

    7. XM_063265384.1 → XP_063121454.1  nuclear factor related to kappa-B-binding protein isoform X8

    8. XM_006242759.5 → XP_006242821.1  nuclear factor related to kappa-B-binding protein isoform X9

      UniProtKB/TrEMBL
      A0A0G2K0N5
      Conserved Domains (1) summary
      pfam14465
      Location:392 → 476
      NFRKB_winged; NFRKB Winged Helix-like

    9. XM_063265389.1 → XP_063121459.1  nuclear factor related to kappa-B-binding protein isoform X12

    10. XM_006242760.5 → XP_006242822.1  nuclear factor related to kappa-B-binding protein isoform X10

      See identical proteins and their annotated locations for XP_006242822.1

      UniProtKB/TrEMBL
      A6JYG5
      Conserved Domains (1) summary
      pfam14465
      Location:392 → 476
      NFRKB_winged; NFRKB Winged Helix-like

    11. XM_063265393.1 → XP_063121463.1  nuclear factor related to kappa-B-binding protein isoform X14

    12. XM_063265388.1 → XP_063121458.1  nuclear factor related to kappa-B-binding protein isoform X11

    13. XM_063265392.1 → XP_063121462.1  nuclear factor related to kappa-B-binding protein isoform X13

    14. XM_063265387.1 → XP_063121457.1  nuclear factor related to kappa-B-binding protein isoform X9

    15. XM_063265390.1 → XP_063121460.1  nuclear factor related to kappa-B-binding protein isoform X12

    16. XM_063265391.1 → XP_063121461.1  nuclear factor related to kappa-B-binding protein isoform X10

      UniProtKB/TrEMBL
      A6JYG5

    17. XM_063265377.1 → XP_063121447.1  nuclear factor related to kappa-B-binding protein isoform X1

      UniProtKB/TrEMBL
      D4A421

    18. XM_063265379.1 → XP_063121449.1  nuclear factor related to kappa-B-binding protein isoform X2

    19. XM_063265381.1 → XP_063121451.1  nuclear factor related to kappa-B-binding protein isoform X5

    20. XM_063265394.1 → XP_063121464.1  nuclear factor related to kappa-B-binding protein isoform X15

    21. XM_063265396.1 → XP_063121466.1  nuclear factor related to kappa-B-binding protein isoform X16

    22. XM_063265397.1 → XP_063121467.1  nuclear factor related to kappa-B-binding protein isoform X17

    23. XM_063265398.1 → XP_063121468.1  nuclear factor related to kappa-B-binding protein isoform X18

    24. XM_063265399.1 → XP_063121469.1  nuclear factor related to kappa-B-binding protein isoform X19

    Nucleotide Protein Strain
    Heading Accession and Version

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