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    Prdm5 PR domain containing 5 [ Mus musculus (house mouse) ]

    Gene ID: 70779, updated on 8-Apr-2018
    Official Symbol
    Prdm5provided by MGI
    Official Full Name
    PR domain containing 5provided by MGI
    Primary source
    MGI:MGI:1918029
    See related
    Ensembl:ENSMUSG00000029913 Vega:OTTMUSG00000036961
    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
    PFM2; AI197291; 4432417F03Rik; 6530401I24Rik; E130112L17Rik
    Expression
    Broad expression in limb E14.5 (RPKM 2.9), CNS E11.5 (RPKM 1.9) and 20 other tissues See more
    Orthologs
    Location:
    6; 6 C1
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 6 NC_000072.6 (65778753..65937622)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 6 NC_000072.5 (65728956..65886371)

    Chromosome 6 - NC_000072.6Genomic Context describing neighboring genes Neighboring gene predicted gene, 36144 Neighboring gene neuron-derived neurotrophic factor Neighboring gene RIKEN cDNA 4930544G11 gene Neighboring gene peptidyl-prolyl cis-trans isomerase A pseudogene 6_651.1

    • 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Gene trapped (2) 
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    RNA polymerase II proximal promoter sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    repressing transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    transcription regulatory region DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    transcription regulatory region sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    transcriptional repressor activity, RNA polymerase II proximal promoter sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    transferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    cellular response to leukemia inhibitory factor IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    chromatin organization IEA
    Inferred from Electronic Annotation
    more info
     
    histone H3-K9 methylation ISO
    Inferred from Sequence Orthology
    more info
     
    histone deacetylation ISO
    Inferred from Sequence Orthology
    more info
     
    methylation IEA
    Inferred from Electronic Annotation
    more info
     
    mitotic cell cycle ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    nuclear body ISO
    Inferred from Sequence Orthology
    more info
     
    nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    Preferred Names
    PR domain zinc finger protein 5
    Names
    PR domain-containing protein 5
    NP_081823.2
    XP_006506664.1
    XP_006506665.1
    XP_006506667.1
    XP_011239766.1

    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_027547.2NP_081823.2  PR domain zinc finger protein 5 isoform 1

      See identical proteins and their annotated locations for NP_081823.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK014501, BG070775, BX511446, BY014014
      Consensus CDS
      CCDS20208.1
      UniProtKB/Swiss-Prot
      Q9CXE0
      Related
      ENSMUSP00000031976.7, OTTMUSP00000052972, ENSMUST00000031976.13, OTTMUST00000094991
      Conserved Domains (4) summary
      smart00317
      Location:20123
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      COG5048
      Location:186590
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:460480
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:473496
      zf-H2C2_2; Zinc-finger double domain
    2. NM_029549.1NP_083825.1  PR domain zinc finger protein 5 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks multiple exons in the coding region but maintains the reading frame, compared to variant 1. These differences result in a shorter isoform (2), compared to isoform 1.
      Source sequence(s)
      AC154005, AC158677
      Consensus CDS
      CCDS85059.1
      UniProtKB/TrEMBL
      E9Q707

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000072.6 Reference GRCm38.p4 C57BL/6J

      Range
      65778753..65937622
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006506604.3XP_006506667.1  PR domain zinc finger protein 5 isoform X4

      Conserved Domains (4) summary
      smart00317
      Location:20123
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      COG5048
      Location:167620
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:491511
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:504527
      zf-H2C2_2; Zinc-finger double domain
    2. XM_011241464.2XP_011239766.1  PR domain zinc finger protein 5 isoform X1

      Conserved Domains (4) summary
      smart00317
      Location:20123
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      COG5048
      Location:361491
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:361381
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:374397
      zf-H2C2_2; Zinc-finger double domain
    3. XM_006506601.3XP_006506664.1  PR domain zinc finger protein 5 isoform X2

      Related
      ENSMUSP00000031973.6, OTTMUSP00000052974, ENSMUST00000031973.12, OTTMUST00000094994
      Conserved Domains (4) summary
      COG5048
      Location:276406
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:276296
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00856
      Location:2085
      SET; SET domain
      pfam13465
      Location:289312
      zf-H2C2_2; Zinc-finger double domain
    4. XM_006506602.3XP_006506665.1  PR domain zinc finger protein 5 isoform X3

      Conserved Domains (4) summary
      COG5048
      Location:163325
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:195215
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00856
      Location:2085
      SET; SET domain
      pfam13465
      Location:208231
      zf-H2C2_2; Zinc-finger double domain

    RNA

    1. XR_377491.3 RNA Sequence

    2. XR_377492.3 RNA Sequence

    3. XR_377493.3 RNA Sequence

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