U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Prdm1 PR domain containing 1, with ZNF domain [ Mus musculus (house mouse) ]

Gene ID: 12142, updated on 18-Apr-2024

Summary

Official Symbol
Prdm1provided by MGI
Official Full Name
PR domain containing 1, with ZNF domainprovided by MGI
Primary source
MGI:MGI:99655
See related
Ensembl:ENSMUSG00000038151 AllianceGenome:MGI:99655
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
Blimp1; Blimp-1; PRDI-BF1; ZNFPR1A1; b2b1765Clo
Summary
Enables histone deacetylase binding activity; promoter-specific chromatin binding activity; and sequence-specific DNA binding activity. Involved in regulation of NK T cell differentiation; regulation of extrathymic T cell differentiation; and regulation of natural killer cell differentiation. Acts upstream of or within several processes, including animal organ development; artery development; and regulation of B cell activation. Located in cytoplasm and nucleus. Is expressed in several structures, including alimentary system; embryo mesenchyme; reproductive system; retina; and skin. Used to study systemic lupus erythematosus. Orthologous to human PRDM1 (PR/SET domain 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in placenta adult (RPKM 3.0), subcutaneous fat pad adult (RPKM 1.7) and 20 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Location:
10 B2; 10 23.24 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (44313170..44404579, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (44437174..44528558, complement)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene autophagy related 5 Neighboring gene microRNA 1929 Neighboring gene STARR-seq mESC enhancer starr_26543 Neighboring gene predicted gene, 35028 Neighboring gene STARR-positive B cell enhancer ABC_E5133 Neighboring gene STARR-positive B cell enhancer ABC_E6840 Neighboring gene STARR-positive B cell enhancer mm9_chr10:44179511-44179811 Neighboring gene STARR-positive B cell enhancer mm9_chr10:44180013-44180313 Neighboring gene STARR-seq mESC enhancer starr_26550 Neighboring gene STARR-positive B cell enhancer mm9_chr10:44249226-44249527 Neighboring gene STARR-positive B cell enhancer mm9_chr10:44259009-44259310 Neighboring gene predicted gene, 22087 Neighboring gene triosephosphate isomerase 1 pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA-binding transcription factor activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables histone methyltransferase binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables methyltransferase activity IEA
Inferred from Electronic Annotation
more info
 
enables promoter-specific chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables transcription cis-regulatory region binding IDA
Inferred from Direct Assay
more info
PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within adaptive immune response IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within aorta development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within artery morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within artery morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cardiac septum development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cell fate commitment IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within cell fate commitment IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cellular developmental process IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within coronary vasculature development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within embryonic placenta development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within eye photoreceptor cell development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in gene expression IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within germ cell development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within heart valve development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within immune system process IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within in utero embryonic development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within innate immune response IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within intestinal epithelial cell development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within kidney development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within maternal placenta development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within methylation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within morphogenesis of a branching structure IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in peptidyl-arginine methylation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of gene expression IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within post-embryonic development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of NK T cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of cell population proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of extrathymic T cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of natural killer cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within retinal bipolar neuron differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within sebum secreting cell proliferation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within trophoblast giant cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within ventricular septum development IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleolus ISO
Inferred from Sequence Orthology
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
 
is_active_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
PR domain zinc finger protein 1
Names
B lymphocyte induced maturation protein
B lymphocyte-induced maturation protein 1
PR domain-containing protein 1
beta-interferon gene positive regulatory domain I-binding factor

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_001405929.1NP_001392858.1  PR domain zinc finger protein 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC027700
    UniProtKB/Swiss-Prot
    A2VDE8, Q3UET9, Q60636
    Related
    ENSMUSP00000039248.5, ENSMUST00000039174.11
  2. NM_001405930.1NP_001392859.1  PR domain zinc finger protein 1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC027700
  3. NM_001405931.1NP_001392860.1  PR domain zinc finger protein 1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC027700
    Related
    ENSMUSP00000151237.2, ENSMUST00000218369.2
  4. NM_001405932.1NP_001392861.1  PR domain zinc finger protein 1 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC027700
  5. NM_001405933.1NP_001392862.1  PR domain zinc finger protein 1 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC027700
  6. NM_001405934.1NP_001392863.1  PR domain zinc finger protein 1 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC027700
  7. NM_001405935.1NP_001392864.1  PR domain zinc finger protein 1 isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC027700
  8. NM_001405936.1NP_001392865.1  PR domain zinc finger protein 1 isoform 8

    Status: VALIDATED

    Source sequence(s)
    AC027700
  9. NM_007548.5NP_031574.2  PR domain zinc finger protein 1 isoform 4

    See identical proteins and their annotated locations for NP_031574.2

    Status: VALIDATED

    Source sequence(s)
    AC027700
    Consensus CDS
    CCDS23825.2
    UniProtKB/TrEMBL
    I7CPP0
    Related
    ENSMUSP00000101129.3, ENSMUST00000105490.3
    Conserved Domains (5) summary
    smart00317
    Location:99205
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    COG5048
    Location:419686
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:575595
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:573595
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:615640
    zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000076.7 Reference GRCm39 C57BL/6J

    Range
    44313170..44404579 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011243109.3XP_011241411.1  PR domain zinc finger protein 1 isoform X4

    See identical proteins and their annotated locations for XP_011241411.1

    UniProtKB/TrEMBL
    I7CPP0
    Conserved Domains (4) summary
    COG5048
    Location:385652
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:541561
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:581606
    zf-H2C2_2; Zinc-finger double domain
    cd19187
    Location:45173
    PR-SET_PRDM1; PR-SET domain found in PR domain zinc finger protein 1 (PRDM1) and similar proteins
  2. XM_036155567.1XP_036011460.1  PR domain zinc finger protein 1 isoform X3

    UniProtKB/TrEMBL
    I7CPP0
    Conserved Domains (3) summary
    sd00017
    Location:622641
    ZF_C2H2; C2H2 Zn finger [structural motif]
    cd19187
    Location:112240
    PR-SET_PRDM1; PR-SET domain found in PR domain zinc finger protein 1 (PRDM1) and similar proteins
    pfam13465
    Location:633658
    zf-H2C2_2; Zinc-finger double domain
  3. XM_006512504.4XP_006512567.1  PR domain zinc finger protein 1 isoform X6

    UniProtKB/TrEMBL
    I7CPP0
    Conserved Domains (4) summary
    COG5048
    Location:247529
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:418438
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:458483
    zf-H2C2_2; Zinc-finger double domain
    cl40432
    Location:150
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily