U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Pdzd4 PDZ domain containing 4 [ Mus musculus (house mouse) ]

Gene ID: 245469, updated on 11-Apr-2024

Summary

Go to the top of the page Help
Official Symbol
Pdzd4provided by MGI
Official Full Name
PDZ domain containing 4provided by MGI
Primary source
MGI:MGI:2443483
See related
Ensembl:ENSMUSG00000002006 AllianceGenome:MGI:2443483
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
LU1; Xlu; Pdzk4; PDZRN4L; Pdzrnk4l; B230341P03; Kiaa1444-hp; D130075J17Rik
Summary
Predicted to be located in cytoplasm. Is expressed in nervous system; neural retina; and seminiferous cord. Orthologous to human PDZD4 (PDZ domain containing 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in CNS E18 (RPKM 41.7), whole brain E14.5 (RPKM 32.0) and 10 other tissues See more
Orthologs
human all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See Pdzd4 in Genome Data Viewer
Location:
X A7.3; X 37.41 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (72836963..72868649, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (73793357..73825043, complement)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E11049 Neighboring gene isocitrate dehydrogenase 3 (NAD+), gamma Neighboring gene STARR-seq mESC enhancer starr_47355 Neighboring gene signal sequence receptor, delta Neighboring gene STARR-seq mESC enhancer starr_47357 Neighboring gene predicted gene, 23615 Neighboring gene STARR-seq mESC enhancer starr_47358 Neighboring gene STARR-seq mESC enhancer starr_47359 Neighboring gene L1 cell adhesion molecule Neighboring gene Rho GTPase activating protein 4 Neighboring gene arginine vasopressin receptor 2

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: 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Identification and characterization of human PDZRN4L gene and mouse Pdzrn4l gene in silico. Katoh M, et al. Int J Mol Med, 2004 Jun. PMID 15138636
  2. Phenotypic annotation of the mouse X chromosome. Cox BJ, et al. Genome Res, 2010 Aug. PMID 20548051, Free PMC Article
  3. EUCOMM--the European conditional mouse mutagenesis program. Friedel RH, et al. Brief Funct Genomic Proteomic, 2007 Sep. PMID 17967808
  4. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article
  5. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article

See all (17) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

Go to the top of the page Help

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 

General gene information

Go to the top of the page Help

Homology

Gene Ontology Provided by MGI

Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
PDZ domain-containing protein 4
Names
PDZ domain-containing RING finger protein 4-like protein

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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_001029868.2 → NP_001025039.1  PDZ domain-containing protein 4 isoform 1

    See identical proteins and their annotated locations for NP_001025039.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AL672094, BC056462
    Consensus CDS
    CCDS30214.1
    UniProtKB/Swiss-Prot
    A2AFG4, Q6PHP2, Q9QY39
    Related
    ENSMUSP00000002080.6, ENSMUST00000002080.12
    Conserved Domains (1) summary
    cd00992
    Location:136 → 218
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

  2. NM_001290540.1 → NP_001277469.1  PDZ domain-containing protein 4 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two alternate in-frame exons, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AK046101, AL672094, BC056462
    Consensus CDS
    CCDS72393.1
    UniProtKB/TrEMBL
    A2AFG3
    Related
    ENSMUSP00000110081.3, ENSMUST00000114438.3
    Conserved Domains (1) summary
    cd00992
    Location:19 → 103
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

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_000086.8 Reference GRCm39 C57BL/6J

    Range
    72836963..72868649 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006528017.4 → XP_006528080.1  PDZ domain-containing protein 4 isoform X1

  2. XM_036161954.1 → XP_036017847.1  PDZ domain-containing protein 4 isoform X3

  3. XM_006528022.5 → XP_006528085.1  PDZ domain-containing protein 4 isoform X5

  4. XM_006528021.5 → XP_006528084.1  PDZ domain-containing protein 4 isoform X4

    Conserved Domains (1) summary
    pfam17820
    Location:20 → 71
    PDZ_6; PDZ domain

  5. XM_006528020.2 → XP_006528083.1  PDZ domain-containing protein 4 isoform X2

    Conserved Domains (1) summary
    cd00992
    Location:18 → 100
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9QY39.2 GenPept UniProtKB/Swiss-Prot:Q9QY39

Gene LinkOut

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

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous