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PRDM4 PR/SET domain 4 [ Homo sapiens (human) ]

Gene ID: 11108, updated on 11-Jun-2021

Summary

Official Symbol
PRDM4provided by HGNC
Official Full Name
PR/SET domain 4provided by HGNC
Primary source
HGNC:HGNC:9348
See related
Ensembl:ENSG00000110851 MIM:605780
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PFM1
Summary
The protein encoded by this gene is a transcription factor of the PR-domain protein family. It contains a PR-domain and multiple zinc finger motifs. Transcription factors of the PR-domain family are known to be involved in cell differentiation and tumorigenesis. An elevated expression level of this gene has been observed in PC12 cells treated with nerve growth factor, beta polypeptide (NGF). This gene is located in a chromosomal region that is thought to contain tumor suppressor genes. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in kidney (RPKM 10.4), esophagus (RPKM 8.7) and 25 other tissues See more
Orthologs
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Genomic context

See PRDM4 in Genome Data Viewer
Location:
12q23.3
Exon count:
12
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 12 NC_000012.12 (107732866..107761272, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (108126648..108154914, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene PWP1 homolog, endonuclein Neighboring gene ribosomal protein L17 pseudogene 38 Neighboring gene uncharacterized LOC101929162 Neighboring gene achaete-scute family bHLH transcription factor 4 Neighboring gene uncharacterized LOC105369963

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Genome-wide association study identifies three novel susceptibility loci for severe Acne vulgaris.
GeneReviews: Not available

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC45046

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in histone H4-R3 methylation NAS
Non-traceable Author Statement
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of gene expression IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
part_of histone methyltransferase complex NAS
Non-traceable Author Statement
more info
PubMed 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
PR domain zinc finger protein 4
Names
PR domain 4
PR domain containing 4
PR domain-containing protein 4
PR-domain zinc-finger protein PFM1

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)

  1. NM_012406.4NP_036538.3  PR domain zinc finger protein 4

    See identical proteins and their annotated locations for NP_036538.3

    Status: REVIEWED

    Source sequence(s)
    AK056378, AL133083, BU502236
    Consensus CDS
    CCDS9115.1
    UniProtKB/Swiss-Prot
    Q9UKN5
    UniProtKB/TrEMBL
    A0A024RBM7, B3KPI0
    Related
    ENSP00000228437.5, ENST00000228437.10
    Conserved Domains (4) summary
    sd00017
    Location:620640
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:618640
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:632657
    zf-H2C2_2; Zinc-finger double domain
    cl02566
    Location:426533
    SET; SET domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p13 Primary Assembly

    Range
    107732866..107761272 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005268593.1XP_005268650.1  PR domain zinc finger protein 4 isoform X1

    See identical proteins and their annotated locations for XP_005268650.1

    Conserved Domains (4) summary
    sd00017
    Location:627647
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:625647
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:639664
    zf-H2C2_2; Zinc-finger double domain
    cl02566
    Location:433540
    SET; SET domain
  2. XM_024448807.1XP_024304575.1  PR domain zinc finger protein 4 isoform X1

    Conserved Domains (4) summary
    sd00017
    Location:627647
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:625647
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:639664
    zf-H2C2_2; Zinc-finger double domain
    cl02566
    Location:433540
    SET; SET domain

RNA

  1. XR_001748564.1 RNA Sequence

  2. XR_001748563.1 RNA Sequence

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