U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Phf12 PHD finger protein 12 [ Rattus norvegicus (Norway rat) ]

Gene ID: 303274, updated on 5-Mar-2024

Summary

Go to the top of the page Help
Official Symbol
Phf12provided by RGD
Official Full Name
PHD finger protein 12provided by RGD
Primary source
RGD:1305731
See related
Ensembl:ENSRNOG00000009566 AllianceGenome:RGD:1305731
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
Summary
Predicted to enable phosphatidylinositol binding activity; transcription corepressor activity; and transcription corepressor binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be part of Sin3 complex and transcription repressor complex. Predicted to be active in nucleus. Orthologous to human PHF12 (PHD finger protein 12). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 82.5), Spleen (RPKM 75.1) and 9 other tissues See more
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See Phf12 in Genome Data Viewer
Location:
10q25
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (63368547..63417079)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (62871309..62919026)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (64815462..64863514, complement)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102551552 Neighboring gene pipecolic acid and sarcosine oxidase Neighboring gene uncharacterized LOC134480828 Neighboring gene seizure related 6 homolog Neighboring gene dehydrogenase/reductase 13 Neighboring gene flotillin 2

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. The polybasic region that follows the plant homeodomain zinc finger 1 of Pf1 is necessary and sufficient for specific phosphoinositide binding. Kaadige MR, et al. J Biol Chem, 2006 Sep 29. PMID 16893883
  2. Peptidoglycan recognition protein Pglyrp2 protects mice from psoriasis-like skin inflammation by promoting regulatory T cells and limiting Th17 responses. Park SY, et al. J Immunol, 2011 Dec 1. PMID 22048773, Free PMC Article
  3. Pf1, a novel PHD zinc finger protein that links the TLE corepressor to the mSin3A-histone deacetylase complex. Yochum GS, et al. Mol Cell Biol, 2001 Jul. PMID 11390640, Free PMC Article
  4. 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
  5. 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

Go to the top of the page Help

Markers

Homology

Clone Names

  • MGC109651

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables phosphatidylinositol binding ISO
Inferred from Sequence Orthology
more info
  
enables transcription corepressor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transcription corepressor activity ISO
Inferred from Sequence Orthology
more info
  
enables transcription corepressor binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of Sin3-type complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of Sin3-type complex ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of transcription repressor complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

Go to the top of the page Help
Preferred Names
PHD finger protein 12

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001013117.2 → NP_001013135.2  PHD finger protein 12

    See identical proteins and their annotated locations for NP_001013135.2

    Status: PROVISIONAL

    Source sequence(s)
    CH473948
    UniProtKB/TrEMBL
    A0A1W2Q657, A6HGZ8, F1LM99
    Related
    ENSRNOP00000053077.3, ENSRNOT00000056234.6
    Conserved Domains (4) summary
    cd00060
    Location:813 → 868
    FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...
    cd15533
    Location:58 → 102
    PHD1_PHF12; PHD finger 1 found in PHD finger protein 12 (PHF12)
    cd15534
    Location:273 → 318
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:203 → 241
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain

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_086028.1 Reference GRCr8

    Range
    63368547..63417079
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063269041.1 → XP_063125111.1  PHD finger protein 12 isoform X4

  2. XM_063269042.1 → XP_063125112.1  PHD finger protein 12 isoform X5

  3. XM_039085997.2 → XP_038941925.1  PHD finger protein 12 isoform X3

    Conserved Domains (3) summary
    cd00060
    Location:596 → 651
    FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...
    cd15534
    Location:56 → 101
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:1 → 24
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain

  4. XM_039085995.2 → XP_038941923.1  PHD finger protein 12 isoform X1

    UniProtKB/TrEMBL
    A0A1W2Q657
    Conserved Domains (4) summary
    cd00060
    Location:759 → 814
    FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...
    cd15534
    Location:219 → 264
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:149 → 187
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain
    cl22851
    Location:30 → 48
    PHD_SF; PHD finger superfamily

  5. XM_039085996.2 → XP_038941924.1  PHD finger protein 12 isoform X2

    UniProtKB/TrEMBL
    A0A1W2Q657
    Conserved Domains (3) summary
    cd00060
    Location:723 → 778
    FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...
    cd15534
    Location:183 → 228
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:113 → 151
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools