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    Glyr1 glyoxylate reductase 1 homolog [ Rattus norvegicus (Norway rat) ]

    Gene ID: 360477, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Glyr1provided by RGD
    Official Full Name
    glyoxylate reductase 1 homologprovided by RGD
    Primary source
    RGD:1309459
    See related
    Ensembl:ENSRNOG00000003065 AllianceGenome:RGD:1309459
    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
    NPAC; N-pac; RGD1309459; 3930401k13rik
    Summary
    Predicted to enable DNA binding activity; methylated histone binding activity; and nucleosome binding activity. Predicted to be involved in positive regulation of histone acetylation and positive regulation of transcription by RNA polymerase II. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of nucleosome. Orthologous to human GLYR1 (glyoxylate reductase 1 homolog). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Kidney (RPKM 309.8), Adrenal (RPKM 221.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Glyr1 in Genome Data Viewer
    Location:
    10q12
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (11038577..11074093)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (10532036..10567639)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (10725830..10759471)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene periplakin Neighboring gene ubinuclein 1 Neighboring gene rogdi atypical leucine zipper Neighboring gene small integral membrane protein 22

    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. NDF, a nucleosome-destabilizing factor that facilitates transcription through nucleosomes. Fei J, et al. Genes Dev, 2018 May 1. PMID 29759984, Free PMC Article
    2. LSD2/KDM1B and its cofactor NPAC/GLYR1 endow a structural and molecular model for regulation of H3K4 demethylation. Fang R, et al. Mol Cell, 2013 Feb 7. PMID 23260659, Free PMC Article
    3. Quantitative interaction proteomics and genome-wide profiling of epigenetic histone marks and their readers. Vermeulen M, et al. Cell, 2010 Sep 17. PMID 20850016
    4. p38α MAPK proximity assay reveals a regulatory mechanism of alternative splicing in cardiomyocytes. Dumont AA, et al. Biochim Biophys Acta Mol Cell Res, 2019 Dec. PMID 31505169
    5. 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

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC94905

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables NAD binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables NADP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin-protein adaptor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables chromatin-protein adaptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables histone binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables methylated histone binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methylated histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables methylated histone binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables nucleosome binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleosome binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleosome binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in transcription elongation-coupled chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in transcription elongation-coupled chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in transcription elongation-coupled chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription initiation-coupled chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in transcription initiation-coupled chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of chromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol 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
    		  
    part_of nucleosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of nucleosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of nucleosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    cytokine-like nuclear factor N-PAC
    Names
    cytokine-like nuclear factor n-pac
    nuclear protein NP60
    putative oxidoreductase GLYR1

    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_001007800.3 → NP_001007801.1  cytokine-like nuclear factor N-PAC

      See identical proteins and their annotated locations for NP_001007801.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/Swiss-Prot
      Q5RKH0
      UniProtKB/TrEMBL
      A0A8I5ZPH2, A6K4P4
      Related
      ENSRNOP00000004159.5, ENSRNOT00000004159.6
      Conserved Domains (3) summary
      cd05836
      Location:6 → 90
      N_Pac_NP60; The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the ...
      COG2084
      Location:267 → 550
      MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]
      cl21454
      Location:209 → 301
      NADB_Rossmann; Rossmann-fold NAD(P)(+)-binding proteins

    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_086028.1 Reference GRCr8

      Range
      11038577..11074093
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039086260.2 → XP_038942188.1  cytokine-like nuclear factor N-PAC isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZPH2

    2. XM_039086261.2 → XP_038942189.1  cytokine-like nuclear factor N-PAC isoform X2

      UniProtKB/TrEMBL
      A0A8I6GIU5
      Related
      ENSRNOP00000090372.1
      Conserved Domains (3) summary
      cd05836
      Location:6 → 90
      N_Pac_NP60; The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the ...
      COG2084
      Location:187 → 470
      MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]
      cl21454
      Location:129 → 221
      NADB_Rossmann; Rossmann-fold NAD(P)(+)-binding proteins

    3. XM_039086262.2 → XP_038942190.1  cytokine-like nuclear factor N-PAC isoform X3

      UniProtKB/TrEMBL
      A0A8I6GIU5
      Conserved Domains (2) summary
      cd05836
      Location:6 → 90
      N_Pac_NP60; The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the ...
      COG2084
      Location:187 → 464
      MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]

    4. XM_039086263.2 → XP_038942191.1  cytokine-like nuclear factor N-PAC isoform X4

      Conserved Domains (2) summary
      COG2084
      Location:77 → 360
      MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]
      cl21454
      Location:19 → 111
      NADB_Rossmann; Rossmann-fold NAD(P)(+)-binding proteins
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5RKH0.1 GenPept UniProtKB/Swiss-Prot:Q5RKH0

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