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    Phf20l1 PHD finger protein 20-like 1 [ Mus musculus (house mouse) ]

    Gene ID: 239510, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Phf20l1provided by MGI
    Official Full Name
    PHD finger protein 20-like 1provided by MGI
    Primary source
    MGI:MGI:2444412
    See related
    Ensembl:ENSMUSG00000072501 AllianceGenome:MGI:2444412
    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
    CGI-72; E130113K22Rik
    Summary
    Predicted to enable methylation-dependent protein binding activity. Predicted to be involved in negative regulation of proteasomal ubiquitin-dependent protein catabolic process and regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of NSL complex. Is expressed in cortical plate; early conceptus; inner cell mass; and oocyte. Orthologous to human PHF20L1 (PHD finger protein 20 like 1). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Broad expression in CNS E18 (RPKM 6.6), CNS E14 (RPKM 6.2) and 25 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Phf20l1 in Genome Data Viewer
    Location:
    15 D1- D2; 15 29.3 cM
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (66449354..66519821)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (66577500..66647043)

    Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene dynein axonemal assembly factor 11 Neighboring gene STARR-seq mESC enhancer starr_38888 Neighboring gene predicted gene, 31006 Neighboring gene STARR-positive B cell enhancer mm9_chr15:66392494-66392795 Neighboring gene transmembrane protein 71 Neighboring gene STARR-positive B cell enhancer mm9_chr15:66511565-66511866 Neighboring gene thyroglobulin Neighboring gene STARR-positive B cell enhancer mm9_chr15:66616909-66617209 Neighboring gene STARR-positive B cell enhancer ABC_E5484 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:66650248-66650357 Neighboring gene VISTA enhancer mm104 Neighboring gene src-like adaptor Neighboring gene STARR-positive B cell enhancer ABC_E5485 Neighboring gene predicted gene, 46514

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data 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

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    Related articles in PubMed

    1. Sf3b4 regulates chromatin remodeler splicing and Hox expression. Kumar S, et al. Differentiation, 2023 May-Jun. PMID 37167859
    2. Jade-1S phosphorylation induced by CK1α contributes to cell cycle progression. Borgal L, et al. Cell Cycle, 2016. PMID 26919559, Free PMC Article
    3. 140 mouse brain proteins identified by Ca2+-calmodulin affinity chromatography and tandem mass spectrometry. Berggård T, et al. J Proteome Res, 2006 Mar. PMID 16512683
    4. Telencephalic embryonic subtractive sequences: a unique collection of neurodevelopmental genes. Bulfone A, et al. J Neurosci, 2005 Aug 17. PMID 16107646, Free PMC Article
    5. Resolution of cell fate decisions revealed by single-cell gene expression analysis from zygote to blastocyst. Guo G, et al. Dev Cell, 2010 Apr 20. PMID 20412781

    See all (22) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methylation-dependent protein binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methylation-dependent protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of proteasomal ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of proteasomal ubiquitin-dependent protein catabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of NSL complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    PHD finger protein 20-like protein 1
    Names
    tudor domain-containing protein PHF20L1

    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_001081409.2 → NP_001074878.1  PHD finger protein 20-like protein 1 isoform 3

      See identical proteins and their annotated locations for NP_001074878.1

      Status: VALIDATED

      Source sequence(s)
      AC163443
      Consensus CDS
      CCDS49621.1
      UniProtKB/Swiss-Prot
      A6H5Y9, Q80UN6, Q8BPP8, Q8BQQ6, Q8BS11, Q8C8H9, Q8CCJ9
      Related
      ENSMUSP00000155487.2, ENSMUST00000229160.2
      Conserved Domains (5) summary
      cd04508
      Location:90 → 135
      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 ...
      PTZ00449
      Location:315 → 506
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd15633
      Location:683 → 728
      PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
      pfam16660
      Location:318 → 383
      PHD20L1_u1; PHD finger protein 20-like protein 1
      cl17705
      Location:3 → 68
      MBT; mbt repeat

    2. NM_001418886.1 → NP_001405815.1  PHD finger protein 20-like protein 1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC163443

    3. NM_001418887.1 → NP_001405816.1  PHD finger protein 20-like protein 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC163443

    4. NM_001418888.1 → NP_001405817.1  PHD finger protein 20-like protein 1 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC163443

    5. NM_001418889.1 → NP_001405818.1  PHD finger protein 20-like protein 1 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC163443
      UniProtKB/TrEMBL
      A0A2R8VHV1

    6. NM_001418890.1 → NP_001405819.1  PHD finger protein 20-like protein 1 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC163443
      UniProtKB/TrEMBL
      A0A2R8VHV1
      Related
      ENSMUSP00000155465.2, ENSMUST00000230948.2

    7. NM_001418891.1 → NP_001405820.1  PHD finger protein 20-like protein 1 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC163443

    8. NM_001418892.1 → NP_001405821.1  PHD finger protein 20-like protein 1 isoform 7

      Status: VALIDATED

      Source sequence(s)
      AC163443

    9. NM_001418893.1 → NP_001405822.1  PHD finger protein 20-like protein 1 isoform 8

      Status: VALIDATED

      Source sequence(s)
      AC163443

    10. NM_001418894.1 → NP_001405823.1  PHD finger protein 20-like protein 1 isoform 8

      Status: VALIDATED

      Source sequence(s)
      AC163443

    11. NM_001418896.1 → NP_001405825.1  PHD finger protein 20-like protein 1 isoform 9

      Status: VALIDATED

      Source sequence(s)
      AC163443

    12. NM_001418897.1 → NP_001405826.1  PHD finger protein 20-like protein 1 isoform 9

      Status: VALIDATED

      Source sequence(s)
      AC163443

    13. NM_001418898.1 → NP_001405827.1  PHD finger protein 20-like protein 1 isoform 10

      Status: VALIDATED

      Source sequence(s)
      AC163443

    14. NM_001418899.1 → NP_001405828.1  PHD finger protein 20-like protein 1 isoform 10

      Status: VALIDATED

      Source sequence(s)
      AC163443

    15. NM_001418900.1 → NP_001405829.1  PHD finger protein 20-like protein 1 isoform 11

      Status: VALIDATED

      Source sequence(s)
      AC163443

    16. NM_001418901.1 → NP_001405830.1  PHD finger protein 20-like protein 1 isoform 11

      Status: VALIDATED

      Source sequence(s)
      AC163443
      Related
      ENSMUSP00000155575.2, ENSMUST00000230882.2

    17. NM_001418902.1 → NP_001405831.1  PHD finger protein 20-like protein 1 isoform 12

      Status: VALIDATED

      Source sequence(s)
      AC163443

    18. NM_001418903.1 → NP_001405832.1  PHD finger protein 20-like protein 1 isoform 12

      Status: VALIDATED

      Source sequence(s)
      AC163443

    19. NM_001418904.1 → NP_001405833.1  PHD finger protein 20-like protein 1 isoform 13

      Status: VALIDATED

      Source sequence(s)
      AC163443

    20. NM_001418905.1 → NP_001405834.1  PHD finger protein 20-like protein 1 isoform 13

      Status: VALIDATED

      Source sequence(s)
      AC163443

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000081.7 Reference GRCm39 C57BL/6J

      Range
      66449354..66519821
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006520918.4 → XP_006520981.1  PHD finger protein 20-like protein 1 isoform X2

      Conserved Domains (5) summary
      cd04508
      Location:90 → 135
      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 ...
      PTZ00449
      Location:319 → 510
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd15633
      Location:687 → 732
      PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
      pfam16660
      Location:322 → 387
      PHD20L1_u1; PHD finger protein 20-like protein 1
      cl17705
      Location:3 → 68
      MBT; mbt repeat

    2. XM_030248546.2 → XP_030104406.1  PHD finger protein 20-like protein 1 isoform X5

      Conserved Domains (5) summary
      cd04508
      Location:90 → 135
      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 ...
      PTZ00449
      Location:290 → 481
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd15633
      Location:658 → 703
      PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
      pfam16660
      Location:293 → 358
      PHD20L1_u1; PHD finger protein 20-like protein 1
      cl17705
      Location:3 → 68
      MBT; mbt repeat

    3. XM_030248545.2 → XP_030104405.1  PHD finger protein 20-like protein 1 isoform X4

      UniProtKB/Swiss-Prot
      A6H5Y9, Q80UN6, Q8BPP8, Q8BQQ6, Q8BS11, Q8C8H9, Q8CCJ9
      Conserved Domains (5) summary
      cd04508
      Location:90 → 135
      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 ...
      PTZ00449
      Location:315 → 506
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd15633
      Location:683 → 728
      PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
      pfam16660
      Location:318 → 383
      PHD20L1_u1; PHD finger protein 20-like protein 1
      cl17705
      Location:3 → 68
      MBT; mbt repeat

    4. XM_006520919.5 → XP_006520982.1  PHD finger protein 20-like protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A5S8DHC4
      Related
      ENSMUSP00000035682.10, ENSMUST00000048188.10
      Conserved Domains (5) summary
      cd04508
      Location:90 → 135
      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 ...
      PTZ00449
      Location:316 → 507
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd15633
      Location:684 → 729
      PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
      pfam16660
      Location:319 → 384
      PHD20L1_u1; PHD finger protein 20-like protein 1
      cl17705
      Location:3 → 68
      MBT; mbt repeat

    5. XM_030248548.2 → XP_030104408.1  PHD finger protein 20-like protein 1 isoform X7

      Conserved Domains (1) summary
      cd15633
      Location:262 → 307
      PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)

    6. XM_006520917.5 → XP_006520980.1  PHD finger protein 20-like protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006520980.1

      Conserved Domains (5) summary
      cd04508
      Location:90 → 135
      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 ...
      PTZ00449
      Location:320 → 511
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd15633
      Location:688 → 733
      PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
      pfam16660
      Location:323 → 388
      PHD20L1_u1; PHD finger protein 20-like protein 1
      cl17705
      Location:3 → 68
      MBT; mbt repeat

    7. XM_030248544.2 → XP_030104404.1  PHD finger protein 20-like protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A5S8DHC4
      Conserved Domains (5) summary
      cd04508
      Location:90 → 135
      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 ...
      PTZ00449
      Location:316 → 507
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd15633
      Location:684 → 729
      PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)
      pfam16660
      Location:319 → 384
      PHD20L1_u1; PHD finger protein 20-like protein 1
      cl17705
      Location:3 → 68
      MBT; mbt repeat

    8. XM_036159397.1 → XP_036015290.1  PHD finger protein 20-like protein 1 isoform X7

      Conserved Domains (1) summary
      cd15633
      Location:262 → 307
      PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)

    9. XM_036159396.1 → XP_036015289.1  PHD finger protein 20-like protein 1 isoform X7

      Conserved Domains (1) summary
      cd15633
      Location:262 → 307
      PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)

    10. XM_030248547.2 → XP_030104407.1  PHD finger protein 20-like protein 1 isoform X7

      Conserved Domains (1) summary
      cd15633
      Location:262 → 307
      PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)

    11. XM_030248549.1 → XP_030104409.1  PHD finger protein 20-like protein 1 isoform X7

      Conserved Domains (1) summary
      cd15633
      Location:262 → 307
      PHD_PHF20L1; PHD finger found in PHD finger protein 20-like protein 1 (P20L1)

    RNA

    1. XR_003951380.1 RNA Sequence

    2. XR_003951377.1 RNA Sequence

    3. XR_003951385.2 RNA Sequence

    4. XR_003951382.2 RNA Sequence

    5. XR_003951379.2 RNA Sequence

    6. XR_004938835.1 RNA Sequence

    7. XR_003951381.1 RNA Sequence

    8. XR_001781530.3 RNA Sequence

    9. XR_001781529.3 RNA Sequence

    10. XR_003951375.2 RNA Sequence

    11. XR_001781531.3 RNA Sequence

    12. XR_001781528.3 RNA Sequence

    13. XR_001781525.3 RNA Sequence

    14. XR_001781524.3 RNA Sequence

    15. XR_001781526.3 RNA Sequence

    16. XR_003951378.2 RNA Sequence

    17. XR_003951376.2 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_178718.2: Suppressed sequence

      Description
      NM_178718.2: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8CCJ9.2 GenPept UniProtKB/Swiss-Prot:Q8CCJ9

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