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    Phf20 PHD finger protein 20 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 311575, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Phf20provided by RGD
    Official Full Name
    PHD finger protein 20provided by RGD
    Primary source
    RGD:1305020
    See related
    Ensembl:ENSRNOG00000019948 AllianceGenome:RGD:1305020
    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
    Also known as
    RGD1305020
    Summary
    Predicted to enable metal ion binding activity. Predicted to be involved in histone H4 acetylation and regulation of transcription by RNA polymerase II. Predicted to be located in cytosol; nuclear membrane; and nucleoplasm. Predicted to be part of MLL1 complex and NSL complex. Orthologous to human PHF20 (PHD finger protein 20). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Adrenal (RPKM 113.0), Brain (RPKM 110.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Phf20 in Genome Data Viewer
    Location:
    3q42
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (165170337..165279276)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (144710253..144816696)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (152273269..152379742)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene reactive oxygen species modulator 1 Neighboring gene RNA binding motif protein 39 Neighboring gene small nucleolar RNA SNORA48 Neighboring gene SCAN domain-containing 1 Neighboring gene cyclic nucleotide binding domain containing 2 Neighboring gene large ribosomal subunit protein eL19-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 composition and substrate specificity of a MOF-containing histone acetyltransferase distinct from the male-specific lethal (MSL) complex. Cai Y, et al. J Biol Chem, 2010 Feb 12. PMID 20018852, Free PMC Article
    2. Physical association and coordinate function of the H3 K4 methyltransferase MLL1 and the H4 K16 acetyltransferase MOF. Dou Y, et al. Cell, 2005 Jun 17. PMID 15960975
    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

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of MLL1 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of MLL1 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of NSL complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of NSL complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of histone acetyltransferase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    PHD finger protein 20

    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_001107795.1 → NP_001101265.1  PHD finger protein 20

      See identical proteins and their annotated locations for NP_001101265.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474050
      UniProtKB/TrEMBL
      A0A8I6AMU6, A6KIA1, D3ZQB7
      Related
      ENSRNOP00000027067.4, ENSRNOT00000027067.7
      Conserved Domains (4) summary
      pfam12618
      Location:178 → 252
      DUF3776; Protein of unknown function (DUF3776)
      cd20453
      Location:87 → 139
      Tudor_PHF20; Tudor domain found in PHD finger protein 20 (PHF20) and similar proteins
      cl17705
      Location:3 → 68
      MBT; mbt repeat
      cl22851
      Location:657 → 700
      PHD_SF; PHD finger superfamily

    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_086021.1 Reference GRCr8

      Range
      165170337..165279276
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017591785.3 → XP_017447274.1  PHD finger protein 20 isoform X3

    2. XM_006235404.5 → XP_006235466.1  PHD finger protein 20 isoform X1

      See identical proteins and their annotated locations for XP_006235466.1

      UniProtKB/TrEMBL
      A0A8I6AMU6, A6KIA1, D3ZQB7
      Conserved Domains (4) summary
      pfam12618
      Location:178 → 252
      DUF3776; Protein of unknown function (DUF3776)
      cd20453
      Location:87 → 139
      Tudor_PHF20; Tudor domain found in PHD finger protein 20 (PHF20) and similar proteins
      cl17705
      Location:3 → 68
      MBT; mbt repeat
      cl22851
      Location:657 → 700
      PHD_SF; PHD finger superfamily

    3. XM_008762342.4 → XP_008760564.1  PHD finger protein 20 isoform X1

      See identical proteins and their annotated locations for XP_008760564.1

      UniProtKB/TrEMBL
      A0A8I6AMU6, A6KIA1, D3ZQB7
      Conserved Domains (4) summary
      pfam12618
      Location:178 → 252
      DUF3776; Protein of unknown function (DUF3776)
      cd20453
      Location:87 → 139
      Tudor_PHF20; Tudor domain found in PHD finger protein 20 (PHF20) and similar proteins
      cl17705
      Location:3 → 68
      MBT; mbt repeat
      cl22851
      Location:657 → 700
      PHD_SF; PHD finger superfamily

    4. XM_039105082.2 → XP_038961010.1  PHD finger protein 20 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AMU6, A6KIA1, D3ZQB7
      Conserved Domains (4) summary
      pfam12618
      Location:178 → 252
      DUF3776; Protein of unknown function (DUF3776)
      cd20453
      Location:87 → 139
      Tudor_PHF20; Tudor domain found in PHD finger protein 20 (PHF20) and similar proteins
      cl17705
      Location:3 → 68
      MBT; mbt repeat
      cl22851
      Location:657 → 700
      PHD_SF; PHD finger superfamily

    5. XM_039105081.2 → XP_038961009.1  PHD finger protein 20 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AMU6, A6KIA1, D3ZQB7
      Conserved Domains (4) summary
      pfam12618
      Location:178 → 252
      DUF3776; Protein of unknown function (DUF3776)
      cd20453
      Location:87 → 139
      Tudor_PHF20; Tudor domain found in PHD finger protein 20 (PHF20) and similar proteins
      cl17705
      Location:3 → 68
      MBT; mbt repeat
      cl22851
      Location:657 → 700
      PHD_SF; PHD finger superfamily

    6. XM_039105084.2 → XP_038961012.1  PHD finger protein 20 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AMU6
      Conserved Domains (2) summary
      pfam12618
      Location:40 → 114
      DUF3776; Protein of unknown function (DUF3776)
      cl22851
      Location:519 → 562
      PHD_SF; PHD finger superfamily

    7. XM_063283850.1 → XP_063139920.1  PHD finger protein 20 isoform X4

    8. XM_039105083.2 → XP_038961011.1  PHD finger protein 20 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AMU6
      Related
      ENSRNOP00000090317.1
      Conserved Domains (2) summary
      pfam12618
      Location:40 → 114
      DUF3776; Protein of unknown function (DUF3776)
      cl22851
      Location:519 → 562
      PHD_SF; PHD finger superfamily

    9. XM_039105086.2 → XP_038961014.1  PHD finger protein 20 isoform X4

      Conserved Domains (2) summary
      pfam03999
      Location:506 → 590
      MAP65_ASE1; Microtubule associated protein (MAP65/ASE1 family)
      cl22851
      Location:251 → 294
      PHD_SF; PHD finger superfamily
    Nucleotide Protein Strain
    Heading Accession and Version

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