U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

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

Gene ID: 100154284, updated on 17-Aug-2024

Summary

Go to the top of the page Help
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
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
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

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: 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
  2. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

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

Go to the top of the page Help
Preferred Names
PR domain zinc finger protein 1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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

Gene LinkOut

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