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Phf20 PHD finger protein 20 [ Mus musculus (house mouse) ]

Gene ID: 228829, updated on 5-Jan-2023

Summary

Official Symbol
Phf20provided by MGI
Official Full Name
PHD finger protein 20provided by MGI
Primary source
MGI:MGI:2444148
See related
Ensembl:ENSMUSG00000038116 AllianceGenome:MGI:2444148
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
6820402O20Rik
Summary
Predicted to enable DNA binding activity and metal ion binding activity. Predicted to be involved in histone H4 acetylation and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within chromatin organization. Predicted to be located in cytosol; nuclear membrane; and nucleoplasm. Predicted to be part of MLL1 complex and NSL complex. Is expressed in early conceptus and genitourinary system. Orthologous to human PHF20 (PHD finger protein 20). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in cerebellum adult (RPKM 9.8), CNS E18 (RPKM 9.6) and 28 other tissues See more
Orthologs
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Genomic context

See Phf20 in Genome Data Viewer
Location:
2; 2 H1
Exon count:
18
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (156038567..156151873)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (156196647..156309953)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene nitrogen fixation gene 1 (S. cerevisiae) Neighboring gene reactive oxygen species modulator 1 Neighboring gene RNA binding motif protein 39 Neighboring gene SCAN domain-containing 1 Neighboring gene cyclic nucleotide binding domain containing 2 Neighboring gene predicted gene 14251

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (2) 
  • Targeted (2)  1 citation
  • Endonuclease-mediated (1) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
 
involved_in histone H4-K16 acetylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in histone H4-K16 acetylation ISO
Inferred from Sequence Orthology
more info
 
involved_in histone H4-K5 acetylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in histone H4-K5 acetylation ISO
Inferred from Sequence Orthology
more info
 
involved_in histone H4-K8 acetylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in histone H4-K8 acetylation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of DNA-templated transcription NAS
Non-traceable Author Statement
more info
PubMed 
involved_in positive regulation of histone H3-K4 methylation ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of dosage compensation by inactivation of X chromosome IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
part_of MLL1 complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of MLL1 complex ISO
Inferred from Sequence Orthology
more info
 
part_of NSL complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of NSL complex ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
PHD finger protein 20
Names
hepatocellular carcinoma-associated antigen 58 homolog

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_172674.2NP_766262.2  PHD finger protein 20

    See identical proteins and their annotated locations for NP_766262.2

    Status: VALIDATED

    Source sequence(s)
    AK033017, AK035209, AK045309, BC086753, CJ176261
    Consensus CDS
    CCDS38297.1
    UniProtKB/Swiss-Prot
    Q8BLG0, Q921N1
    Related
    ENSMUSP00000043138.9, ENSMUST00000037401.10
    Conserved Domains (5) summary
    cd04508
    Location:90135
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    cd15634
    Location:657700
    PHD_PHF20; PHD finger found in PHD finger protein 20 (PHF20)
    pfam12618
    Location:176259
    DUF3776; Protein of unknown function (DUF3776)
    cl17705
    Location:368
    MBT; mbt repeat
    cl22934
    Location:215313
    DUF1699; Protein of unknown function (DUF1699)

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    156038567..156151873
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006499338.4XP_006499401.1  PHD finger protein 20 isoform X4

    Conserved Domains (2) summary
    cl17705
    Location:368
    MBT; mbt repeat
    cl22851
    Location:501544
    PHD_SF; PHD finger superfamily
  2. XM_006499339.2XP_006499402.1  PHD finger protein 20 isoform X5

    Conserved Domains (1) summary
    cl22851
    Location:251294
    PHD_SF; PHD finger superfamily
  3. XM_036161523.1XP_036017416.1  PHD finger protein 20 isoform X5

    Conserved Domains (1) summary
    cl22851
    Location:251294
    PHD_SF; PHD finger superfamily
  4. XM_036161511.1XP_036017404.1  PHD finger protein 20 isoform X2

    Conserved Domains (2) summary
    pfam12618
    Location:40114
    DUF3776; Protein of unknown function (DUF3776)
    cl22851
    Location:519562
    PHD_SF; PHD finger superfamily
  5. XM_017317827.2XP_017173316.1  PHD finger protein 20 isoform X1

    Conserved Domains (4) summary
    cd15634
    Location:602645
    PHD_PHF20; PHD finger found in PHD finger protein 20 (PHF20)
    pfam05793
    Location:74259
    TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
    pfam12618
    Location:123197
    DUF3776; Protein of unknown function (DUF3776)
    cl17705
    Location:368
    MBT; mbt repeat
  6. XM_036161524.1XP_036017417.1  PHD finger protein 20 isoform X5

    Conserved Domains (1) summary
    cl22851
    Location:251294
    PHD_SF; PHD finger superfamily
  7. XM_036161513.1XP_036017406.1  PHD finger protein 20 isoform X2

    Related
    ENSMUST00000152617.8
    Conserved Domains (2) summary
    pfam12618
    Location:40114
    DUF3776; Protein of unknown function (DUF3776)
    cl22851
    Location:519562
    PHD_SF; PHD finger superfamily
  8. XM_036161514.1XP_036017407.1  PHD finger protein 20 isoform X2

    Conserved Domains (2) summary
    pfam12618
    Location:40114
    DUF3776; Protein of unknown function (DUF3776)
    cl22851
    Location:519562
    PHD_SF; PHD finger superfamily
  9. XM_036161515.1XP_036017408.1  PHD finger protein 20 isoform X3

    Conserved Domains (2) summary
    pfam12618
    Location:39113
    DUF3776; Protein of unknown function (DUF3776)
    cl22851
    Location:518561
    PHD_SF; PHD finger superfamily