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

Gene ID: 311575, updated on 2-Nov-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
EnsemblRapid: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 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, Nov 2024]
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 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
    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
    Related
    ENSRNOP00000027067.4, ENSRNOT00000027067.8
    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
    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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