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    PRDM1 PR/SET domain 1 [ Sus scrofa (pig) ]

    Gene ID: 100154284, updated on 8-Mar-2024

    Summary

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    Official Symbol
    PRDM1provided by VGNC
    Official Full Name
    PR/SET domain 1provided by VGNC
    Primary source
    VGNC:VGNC:91772
    See related
    Ensembl:ENSSSCG00000004369
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Sus scrofa
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
    Expression
    Broad expression in spleen (RPKM 3.4), lung (RPKM 2.2) and 7 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See PRDM1 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    106 current Sscrofa11.1 (GCF_000003025.6) 1 NC_010443.5 (72309096..72335474)
    105 previous assembly Sscrofa10.2 (GCF_000003025.5) 1 NC_010443.4 (81574968..81601267)

    Chromosome 1 - NC_010443.5Genomic Context describing neighboring genes Neighboring gene 60S ribosomal protein L6 pseudogene Neighboring gene uncharacterized LOC106507207 Neighboring gene autophagy related 5 Neighboring gene uncharacterized LOC110259431 Neighboring gene crystallin beta-gamma domain containing 1 Neighboring gene reticulon 4 interacting protein 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome data used for gene annotation
    • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
    • BioProject: PRJNA311523
    • Publication: PMID 27646534
    • Analysis date: Thu Dec 14 17:10:49 2017

    Bibliography

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    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables histone deacetylase binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell fate commitment IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    PR domain zinc finger protein 1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...Open this link in a new tab

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

    Reference Sscrofa11.1 Primary Assembly

    Genomic

    1. NC_010443.5 Reference Sscrofa11.1 Primary Assembly

      Range
      72309096..72335474
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005659341.3 → XP_005659398.1  PR domain zinc finger protein 1 isoform X4

      See identical proteins and their annotated locations for XP_005659398.1

      UniProtKB/TrEMBL
      A0A4X1VE21, A0A8D1P0X1
      Conserved Domains (3) summary
      smart00317
      Location:50 → 170
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      COG5048
      Location:538 → 656
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:545 → 565
      ZF_C2H2; C2H2 Zn finger [structural motif]

    2. XM_021090455.1 → XP_020946114.1  PR domain zinc finger protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A287BJT0, A0A4X1VDZ6, A0A8D1P0X1
      Related
      ENSSSCP00000056637.1, ENSSSCT00000038421.3
      Conserved Domains (3) summary
      smart00317
      Location:86 → 206
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      sd00017
      Location:595 → 614
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:606 → 631
      zf-H2C2_2; Zinc-finger double domain

    3. XM_001925350.4 → XP_001925385.1  PR domain zinc finger protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A4X1VA80, A0A8D1P0X1, F1RYP9
      Related
      ENSSSCP00000004716.2, ENSSSCT00000004830.4
      Conserved Domains (5) summary
      smart00317
      Location:86 → 206
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      COG5048
      Location:574 → 692
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:581 → 601
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:579 → 601
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:621 → 646
      zf-H2C2_2; Zinc-finger double domain

    4. XM_021090447.1 → XP_020946106.1  PR domain zinc finger protein 1 isoform X4

      UniProtKB/TrEMBL
      A0A4X1VE21, A0A8D1P0X1
      Conserved Domains (3) summary
      smart00317
      Location:50 → 170
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      COG5048
      Location:538 → 656
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:545 → 565
      ZF_C2H2; C2H2 Zn finger [structural motif]

    5. XM_013992732.2 → XP_013848186.1  PR domain zinc finger protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A8D1P0X1
      Conserved Domains (3) summary
      smart00317
      Location:100 → 220
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      sd00017
      Location:609 → 628
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:620 → 645
      zf-H2C2_2; Zinc-finger double domain

    6. XM_005659340.3 → XP_005659397.1  PR domain zinc finger protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A287BLU1, A0A4X1VE26, A0A8D1P0X1
      Related
      ENSSSCP00000057386.2, ENSSSCT00000037769.3
      Conserved Domains (5) summary
      smart00317
      Location:100 → 220
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      COG5048
      Location:588 → 706
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:595 → 615
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:593 → 615
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:635 → 660
      zf-H2C2_2; Zinc-finger double domain

    7. XM_005659342.3 → XP_005659399.1  PR domain zinc finger protein 1 isoform X4

      See identical proteins and their annotated locations for XP_005659399.1

      UniProtKB/TrEMBL
      A0A4X1VE21, A0A8D1P0X1
      Conserved Domains (3) summary
      smart00317
      Location:50 → 170
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      COG5048
      Location:538 → 656
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:545 → 565
      ZF_C2H2; C2H2 Zn finger [structural motif]

    8. XM_021090461.1 → XP_020946120.1  PR domain zinc finger protein 1 isoform X6

      UniProtKB/TrEMBL
      A0A287B0W9, A0A4X1VA87, A0A8D1P0X1
      Related
      ENSSSCP00000049758.1, ENSSSCT00000053050.3
      Conserved Domains (4) summary
      smart00317
      Location:5 → 72
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      COG5048
      Location:440 → 558
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:447 → 467
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:487 → 512
      zf-H2C2_2; Zinc-finger double domain
    Nucleotide Protein
    Heading Accession and Version

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