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Phf14 PHD finger protein 14 [ Rattus norvegicus (Norway rat) ]

Gene ID: 500030, updated on 2-Nov-2024

Summary

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Official Symbol
Phf14provided by RGD
Official Full Name
PHD finger protein 14provided by RGD
Primary source
RGD:1563764
See related
EnsemblRapid:ENSRNOG00000005775 AllianceGenome:RGD:1563764
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
RGD1563764
Summary
Predicted to enable histone binding activity. Predicted to be involved in germinal center B cell differentiation and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including lung alveolus development; negative regulation of mesenchymal cell proliferation involved in lung development; and negative regulation of platelet-derived growth factor receptor-alpha signaling pathway. Predicted to be located in chromatin; cytoplasm; and nucleus. Orthologous to human PHF14 (PHD finger protein 14). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Brain (RPKM 161.3), Thymus (RPKM 109.3) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Phf14 in Genome Data Viewer
Location:
4q21
Exon count:
22
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (40975897..41162043)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (40009691..40195877)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (38241189..38420199)

Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene stathmin like, pseudogene 2 Neighboring gene Ndufa4, mitochondrial complex associated Neighboring gene uncharacterized LOC120102235 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene thrombospondin type 1 domain containing 7A Neighboring gene ribosomal protein S2, pseudogene 40

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. Phf14, a novel regulator of mesenchyme growth via platelet-derived growth factor (PDGF) receptor-α. Kitagawa M, et al. J Biol Chem, 2012 Aug 10. PMID 22730381, Free PMC Article
  2. 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
  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 histone binding ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in germinal center B cell differentiation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within lung alveolus development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of mesenchymal cell proliferation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of mesenchymal cell proliferation involved in lung development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within negative regulation of cell population proliferation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within negative regulation of mesenchymal cell proliferation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within negative regulation of mesenchymal cell proliferation involved in lung development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within negative regulation of platelet-derived growth factor receptor-alpha signaling pathway ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II 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
located_in chromatin ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
PHD finger protein 14

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_001110492.1 → NP_001103962.1  PHD finger protein 14 isoform 2

    See identical proteins and their annotated locations for NP_001103962.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473959
    UniProtKB/TrEMBL
    A0A8I5ZNB3, A6IDZ1, G3V9T6
    Related
    ENSRNOP00000059404.1, ENSRNOT00000065649.4
    Conserved Domains (3) summary
    cd15561
    Location:313 → 369
    PHD1_PHF14; PHD finger 1 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15562
    Location:719 → 768
    PHD2_PHF14; PHD finger 2 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15674
    Location:377 → 490
    ePHD_PHF14; Extended PHD finger found in PHD finger protein 14 (PHF14) and similar proteins

  2. NM_001398908.1 → NP_001385837.1  PHD finger protein 14 isoform 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000004
    UniProtKB/TrEMBL
    A0A0G2K7P2
    Conserved Domains (4) summary
    cd15561
    Location:313 → 369
    PHD1_PHF14; PHD finger 1 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15562
    Location:719 → 768
    PHD2_PHF14; PHD finger 2 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15563
    Location:862 → 910
    PHD3_PHF14; PHD finger 3 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15674
    Location:377 → 490
    ePHD_PHF14; Extended PHD finger found in PHD finger protein 14 (PHF14) and similar proteins

  3. NM_001398909.1 → NP_001385838.1  PHD finger protein 14 isoform 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000004
    UniProtKB/TrEMBL
    B2GUY7
    Conserved Domains (3) summary
    cd15561
    Location:313 → 369
    PHD1_PHF14; PHD finger 1 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15562
    Location:719 → 768
    PHD2_PHF14; PHD finger 2 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15674
    Location:377 → 490
    ePHD_PHF14; Extended PHD finger found in PHD finger protein 14 (PHF14) and similar proteins

RNA

  1. NR_174140.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000004

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_086022.1 Reference GRCr8

    Range
    40975897..41162043
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006236105.5 → XP_006236167.1  PHD finger protein 14 isoform X2

    See identical proteins and their annotated locations for XP_006236167.1

    UniProtKB/TrEMBL
    A0A8I6ASZ4
    Conserved Domains (4) summary
    cd15561
    Location:313 → 369
    PHD1_PHF14; PHD finger 1 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15562
    Location:719 → 768
    PHD2_PHF14; PHD finger 2 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15563
    Location:862 → 920
    PHD3_PHF14; PHD finger 3 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15674
    Location:377 → 490
    ePHD_PHF14; Extended PHD finger found in PHD finger protein 14 (PHF14) and similar proteins

  2. XM_063286469.1 → XP_063142539.1  PHD finger protein 14 isoform X4

    UniProtKB/TrEMBL
    A0A0G2K7P2

  3. XM_063286474.1 → XP_063142544.1  PHD finger protein 14 isoform X9

    UniProtKB/TrEMBL
    A0A8I5Y7V8
    Related
    ENSRNOP00000089184.2, ENSRNOT00000094938.2

  4. XM_006236104.5 → XP_006236166.1  PHD finger protein 14 isoform X1

    See identical proteins and their annotated locations for XP_006236166.1

    UniProtKB/TrEMBL
    A0A8I6ASZ4
    Related
    ENSRNOP00000074287.3, ENSRNOT00000089897.3
    Conserved Domains (4) summary
    cd15561
    Location:313 → 369
    PHD1_PHF14; PHD finger 1 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15562
    Location:719 → 768
    PHD2_PHF14; PHD finger 2 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15563
    Location:862 → 920
    PHD3_PHF14; PHD finger 3 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15674
    Location:377 → 490
    ePHD_PHF14; Extended PHD finger found in PHD finger protein 14 (PHF14) and similar proteins

  5. XM_063286468.1 → XP_063142538.1  PHD finger protein 14 isoform X3

  6. XM_063286472.1 → XP_063142542.1  PHD finger protein 14 isoform X7

  7. XM_039108097.2 → XP_038964025.1  PHD finger protein 14 isoform X10

    UniProtKB/TrEMBL
    A6IDZ2
    Related
    ENSRNOP00000095907.1, ENSRNOT00000106332.2
    Conserved Domains (4) summary
    cd15561
    Location:36 → 92
    PHD1_PHF14; PHD finger 1 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15562
    Location:442 → 491
    PHD2_PHF14; PHD finger 2 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15563
    Location:585 → 643
    PHD3_PHF14; PHD finger 3 found in PHD finger protein 14 (PHF14) and similar proteins
    cd15674
    Location:100 → 213
    ePHD_PHF14; Extended PHD finger found in PHD finger protein 14 (PHF14) and similar proteins

  8. XM_063286470.1 → XP_063142540.1  PHD finger protein 14 isoform X5

    Related
    ENSRNOP00000079696.2, ENSRNOT00000103513.2

  9. XM_063286471.1 → XP_063142541.1  PHD finger protein 14 isoform X6

    Related
    ENSRNOP00000098004.2, ENSRNOT00000120231.2

  10. XM_063286473.1 → XP_063142543.1  PHD finger protein 14 isoform X8

    UniProtKB/TrEMBL
    A0A8I5Y7V8
    Related
    ENSRNOP00000077762.1, ENSRNOT00000108109.2

RNA

  1. XR_010065688.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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