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

Gene ID: 100154284, updated on 17-Aug-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 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
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