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    Prdm2 PR/SET domain 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 313678, updated on 3-Dec-2024

    Summary

    Official Symbol
    Prdm2provided by RGD
    Official Full Name
    PR/SET domain 2provided by RGD
    Primary source
    RGD:1594531
    See related
    EnsemblRapid:ENSRNOG00000033522 AllianceGenome:RGD:1594531
    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
    Also known as
    Riz
    Summary
    Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific; DNA-binding transcription repressor activity, RNA polymerase II-specific; and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Involved in response to estradiol. Predicted to be located in Golgi apparatus and nucleoplasm. Predicted to be active in nucleus. Orthologous to human PRDM2 (PR/SET domain 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Spleen (RPKM 61.3), Kidney (RPKM 56.5) and 9 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Prdm2 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (160704396..160815184, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (155421066..155531884, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (161769587..161879150, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene kazrin, periplakin interacting protein Neighboring gene uncharacterized LOC102556543 Neighboring gene uncharacterized LOC120103134 Neighboring gene large ribosomal subunit protein uL5-like Neighboring gene uncharacterized LOC103692503 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene ribosomal protein S20, pseudogene 11 Neighboring gene tubulin, alpha 1A, pseudogene 1

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Component Evidence Code Pubs
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    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
     

    General protein information

    Preferred Names
    PR domain zinc finger protein 2
    Names
    PR domain 2
    PR domain containing 2, with ZNF domain
    PR domain-containing protein 2
    retinoblastoma interacting zinc finger protein
    retinoblastoma protein-binding zinc finger protein
    retinoblastoma protein-interacting zinc finger protein
    zinc finger protein RIZ
    NP_001071116.2
    XP_017448915.1
    XP_038966015.1
    XP_038966018.1
    XP_063143890.1
    XP_063143891.1
    XP_063143892.1

    NCBI Reference Sequences (RefSeq)

    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_001077648.2NP_001071116.2  PR domain zinc finger protein 2

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/Swiss-Prot
      Q63755
      UniProtKB/TrEMBL
      F1LQ66
      Related
      ENSRNOP00000046011.3, ENSRNOT00000041175.6
      Conserved Domains (4) summary
      sd00017
      Location:11251145
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd19188
      Location:22144
      PR-SET_PRDM2; PR-SET domain found in PR domain zinc finger protein 2 (PRDM2) and similar proteins
      pfam00096
      Location:355377
      zf-C2H2; Zinc finger, C2H2 type
      pfam13894
      Location:476499
      zf-C2H2_4; C2H2-type zinc finger

    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_086023.1 Reference GRCr8

      Range
      160704396..160815184 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063287822.1XP_063143892.1  PR domain zinc finger protein 2 isoform X5

    2. XM_039110087.2XP_038966015.1  PR domain zinc finger protein 2 isoform X1

      UniProtKB/Swiss-Prot
      Q63755
      UniProtKB/TrEMBL
      F1LQ66
      Conserved Domains (4) summary
      sd00017
      Location:11251145
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd19188
      Location:22144
      PR-SET_PRDM2; PR-SET domain found in PR domain zinc finger protein 2 (PRDM2) and similar proteins
      pfam00096
      Location:355377
      zf-C2H2; Zinc finger, C2H2 type
      pfam13894
      Location:476499
      zf-C2H2_4; C2H2-type zinc finger
    3. XM_017593426.3XP_017448915.1  PR domain zinc finger protein 2 isoform X1

      UniProtKB/Swiss-Prot
      Q63755
      UniProtKB/TrEMBL
      F1LQ66
      Conserved Domains (4) summary
      sd00017
      Location:11251145
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd19188
      Location:22144
      PR-SET_PRDM2; PR-SET domain found in PR domain zinc finger protein 2 (PRDM2) and similar proteins
      pfam00096
      Location:355377
      zf-C2H2; Zinc finger, C2H2 type
      pfam13894
      Location:476499
      zf-C2H2_4; C2H2-type zinc finger
    4. XM_063287821.1XP_063143891.1  PR domain zinc finger protein 2 isoform X3

      UniProtKB/Swiss-Prot
      Q63755
      Related
      ENSRNOP00000106619.1, ENSRNOT00000124287.1
    5. XM_039110090.2XP_038966018.1  PR domain zinc finger protein 2 isoform X4

      UniProtKB/Swiss-Prot
      Q63755
      Conserved Domains (2) summary
      sd00017
      Location:925945
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:155177
      zf-C2H2; Zinc finger, C2H2 type
    6. XM_063287820.1XP_063143890.1  PR domain zinc finger protein 2 isoform X2

      UniProtKB/Swiss-Prot
      Q63755