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

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: human all
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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_000076.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pro-Inflammatory of PRDM1/SIRT2/NLRP3 Axis in Monosodium Urate-Induced Acute Gouty Arthritis.
Title: Pro-Inflammatory of PRDM1/SIRT2/NLRP3 Axis in Monosodium Urate-Induced Acute Gouty Arthritis.
Blimp-1 signaling pathways in T lymphocytes is essential to control the Trypanosoma cruzi infection-induced inflammation.
Title: Blimp-1 signaling pathways in T lymphocytes is essential to control the Trypanosoma cruzi infection-induced inflammation.
The Xbp1-regulated transcription factor Mist1 restricts antibody secretion by restraining Blimp1 expression in plasma cells.
Title: The Xbp1-regulated transcription factor Mist1 restricts antibody secretion by restraining Blimp1 expression in plasma cells.
Blimp1 suppressed CD4[+] T cells-induced activation of fibroblast-like synoviocytes by upregulating IL-10 via the rho pathway.
Title: Blimp1 suppressed CD4(+) T cells-induced activation of fibroblast-like synoviocytes by upregulating IL-10 via the rho pathway.
Hobit and Blimp-1 regulate TRM abundance after LCMV infection by suppressing tissue exit pathways of TRM precursors.
Title: Hobit and Blimp-1 regulate T(RM) abundance after LCMV infection by suppressing tissue exit pathways of T(RM) precursors.
Blimp-1 molds the epigenetic architecture of IL-21-mediated autoimmune diseases through an autoregulatory circuit.
Title: Blimp-1 molds the epigenetic architecture of IL-21-mediated autoimmune diseases through an autoregulatory circuit.
AIM2 deficiency in B cells ameliorates systemic lupus erythematosus by regulating Blimp-1-Bcl-6 axis-mediated B-cell differentiation.
Title: AIM2 deficiency in B cells ameliorates systemic lupus erythematosus by regulating Blimp-1-Bcl-6 axis-mediated B-cell differentiation.
NFATc1/alphaA and Blimp-1 Support the Follicular and Effector Phenotype of Tregs.
Title: NFATc1/αA and Blimp-1 Support the Follicular and Effector Phenotype of Tregs.
A System for In Vitro Generation of Mature Murine Plasma Cells Uncovers Differential Blimp-1/Prdm1 Promoter Usage.
Title: A System for In Vitro Generation of Mature Murine Plasma Cells Uncovers Differential Blimp-1/Prdm1 Promoter Usage.
Dependence on Bcl6 and Blimp1 drive distinct differentiation of murine memory and follicular helper CD4+ T cells.
Title: Dependence on Bcl6 and Blimp1 drive distinct differentiation of murine memory and follicular helper CD4+ T cells.

Submit: New GeneRIF Correction See all GeneRIFs (167)

Variation

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Alleles

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

Targeted (18) 1 citation
Chemically induced (ENU) (1)
Endonuclease-mediated (8) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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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

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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)

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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)

NM_001405929.1 → NP_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
NM_001405930.1 → NP_001392859.1 PR domain zinc finger protein 1 isoform 2

Status: VALIDATED

Source sequence(s)

AC027700
NM_001405931.1 → NP_001392860.1 PR domain zinc finger protein 1 isoform 3

Status: VALIDATED

Source sequence(s)

AC027700

Related

ENSMUSP00000151237.2, ENSMUST00000218369.2
NM_001405932.1 → NP_001392861.1 PR domain zinc finger protein 1 isoform 5

Status: VALIDATED

Source sequence(s)

AC027700
NM_001405933.1 → NP_001392862.1 PR domain zinc finger protein 1 isoform 5

Status: VALIDATED

Source sequence(s)

AC027700
NM_001405934.1 → NP_001392863.1 PR domain zinc finger protein 1 isoform 6

Status: VALIDATED

Source sequence(s)

AC027700
NM_001405935.1 → NP_001392864.1 PR domain zinc finger protein 1 isoform 7

Status: VALIDATED

Source sequence(s)

AC027700
NM_001405936.1 → NP_001392865.1 PR domain zinc finger protein 1 isoform 8

Status: VALIDATED

Source sequence(s)

AC027700
NM_007548.5 → NP_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:99 → 205

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

COG5048
Location:419 → 686

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:575 → 595

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:573 → 595

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:615 → 640

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

NC_000076.7 Reference GRCm39 C57BL/6J

Range

44313170..44404579 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011243109.3 → XP_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:385 → 652

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:541 → 561

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam13465
Location:581 → 606

zf-H2C2_2; Zinc-finger double domain

cd19187
Location:45 → 173

PR-SET_PRDM1; PR-SET domain found in PR domain zinc finger protein 1 (PRDM1) and similar proteins
XM_036155567.1 → XP_036011460.1 PR domain zinc finger protein 1 isoform X3

UniProtKB/TrEMBL

I7CPP0

Conserved Domains (3) summary

sd00017
Location:622 → 641

ZF_C2H2; C2H2 Zn finger [structural motif]

cd19187
Location:112 → 240

PR-SET_PRDM1; PR-SET domain found in PR domain zinc finger protein 1 (PRDM1) and similar proteins

pfam13465
Location:633 → 658

zf-H2C2_2; Zinc-finger double domain
XM_006512504.4 → XP_006512567.1 PR domain zinc finger protein 1 isoform X6

UniProtKB/TrEMBL

I7CPP0

Conserved Domains (4) summary

COG5048
Location:247 → 529

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:418 → 438

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam13465
Location:458 → 483

zf-H2C2_2; Zinc-finger double domain

cl40432
Location:1 → 50

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily