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    Pde4b phosphodiesterase 4B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 24626, updated on 9-Dec-2024

    Summary

    Symbol
    Pde4bprovided by RGD
    Full Name
    phosphodiesterase 4Bprovided by RGD
    Primary source
    RGD:3280
    See related
    EnsemblRapid:ENSRNOG00000005905 AllianceGenome:RGD:3280
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Pde4B1; Pde4B2; Pde4B3; Pde4B4; Pde4b5; PDE4/IVb; Pde4b_v1; Pde4b_v2; Pde4b_v3; Pde4b_v4
    Summary
    Enables 3',5'-cyclic-AMP phosphodiesterase activity. Predicted to be involved in several processes, including cAMP-mediated signaling; positive regulation of cytokine production; and regulation of muscle system process. Predicted to act upstream of or within several processes, including cellular response to lipopolysaccharide; neutrophil chemotaxis; and neutrophil homeostasis. Located in perinuclear region of cytoplasm. Human ortholog(s) of this gene implicated in alcohol dependence. Orthologous to human PDE4B (phosphodiesterase 4B). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 181.0), Heart (RPKM 165.9) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Pde4b in Genome Data Viewer
    Location:
    5q33
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (122028956..122598267)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (116799819..117369155)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (121759236..122136814)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486956 Neighboring gene uncharacterized LOC120103168 Neighboring gene oogenesin 3 like 2 Neighboring gene uncharacterized LOC103692427 Neighboring gene uncharacterized LOC102548249 Neighboring gene uncharacterized LOC134486957 Neighboring gene SH3GL interacting endocytic adaptor 1 Neighboring gene dynein light chain Tctex-type family member 5

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    General gene information

    Clone Names

    • MGC93193

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 3',5'-cyclic-AMP phosphodiesterase activity  
    enables 3',5'-cyclic-AMP phosphodiesterase activity PubMed 
    enables 3',5'-cyclic-AMP phosphodiesterase activity  
    enables 3',5'-cyclic-AMP phosphodiesterase activity  
    enables 3',5'-cyclic-GMP phosphodiesterase activity  
    enables 3',5'-cyclic-nucleotide phosphodiesterase activity  
    enables cAMP binding  
    enables cAMP binding  
    enables calcium channel regulator activity  
    enables gamma-tubulin binding  
    enables gamma-tubulin binding  
    enables hydrolase activity  
    enables metal ion binding  
    enables transmembrane transporter binding  
    enables transmembrane transporter binding  
    Process Evidence Code Pubs
    involved_in T cell receptor signaling pathway  
    involved_in T cell receptor signaling pathway  
    involved_in cAMP catabolic process  
    involved_in cAMP-mediated signaling  
    involved_in cellular response to epinephrine stimulus  
    involved_in cellular response to lipopolysaccharide  
    acts_upstream_of_or_within cellular response to lipopolysaccharide  
    involved_in cellular response to xenobiotic stimulus  
    acts_upstream_of_or_within cellular response to xenobiotic stimulus  
    acts_upstream_of_or_within leukocyte migration  
    involved_in negative regulation of adenylate cyclase-activating adrenergic receptor signaling pathway  
    involved_in negative regulation of relaxation of cardiac muscle  
    involved_in neutrophil chemotaxis  
    acts_upstream_of_or_within neutrophil chemotaxis  
    involved_in neutrophil homeostasis  
    acts_upstream_of_or_within neutrophil homeostasis  
    involved_in positive regulation of interleukin-2 production  
    involved_in positive regulation of interleukin-2 production  
    involved_in positive regulation of type II interferon production  
    involved_in positive regulation of type II interferon production  
    involved_in regulation of calcium ion transmembrane transport via high voltage-gated calcium channel  
    involved_in regulation of cardiac muscle cell contraction  
    involved_in signal transduction  
    NOT acts_upstream_of_or_within smooth muscle contraction  
    Component Evidence Code Pubs
    located_in Z disc  
    located_in cell periphery  
    located_in centrosome  
    located_in centrosome  
    located_in cytosol  
    located_in cytosol  
    located_in dendritic spine  
    located_in dendritic spine  
    located_in excitatory synapse  
    located_in excitatory synapse  
    part_of gamma-tubulin complex  
    part_of gamma-tubulin complex  
    located_in membrane  
    located_in perinuclear region of cytoplasm PubMed 
    located_in postsynaptic density  
    located_in postsynaptic density  
    located_in synaptic vesicle  
    located_in synaptic vesicle  
    part_of voltage-gated calcium channel complex  

    General protein information

    Preferred Names
    3',5'-cyclic-AMP phosphodiesterase 4B
    Names
    3',5'-cyclic AMP phosphodiesterase
    DPDE4
    Phosphodiesterase 4B, cAMP-specific (dunce
    cAMP-specific 3',5'-cyclic phosphodiesterase 4B
    cAMP-specific phosphodiesterase 4B
    phosphodiesterase 4B, cAMP specific
    phosphodiesterase type 4B5
    NP_001385864.1
    NP_058727.3
    XP_038965200.1
    XP_038965202.1
    XP_038965203.1
    XP_063143230.1

    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_001398935.2NP_001385864.1  3',5'-cyclic-AMP phosphodiesterase 4B isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/Swiss-Prot
      P14646, Q5RKL0, Q8VD81, Q8VD82
      UniProtKB/TrEMBL
      A0A8I5ZY41, A6JRQ8
      Related
      ENSRNOP00000084515.1, ENSRNOT00000099065.2
      Conserved Domains (2) summary
      pfam00233
      Location:405646
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam18100
      Location:166281
      PDE4_UCR; Phosphodiesterase 4 upstream conserved regions (UCR)
    2. NM_001429342.1NP_001416271.1  3',5'-cyclic-AMP phosphodiesterase 4B isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A6JRR1, D3ZLB2, F1M1T9
    3. NM_017031.4NP_058727.3  3',5'-cyclic-AMP phosphodiesterase 4B isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A0A8I6AT13, A6JRQ9, F1M1T9
      Related
      ENSRNOP00000008278.6, ENSRNOT00000008278.8
      Conserved Domains (2) summary
      pfam00233
      Location:390631
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam18100
      Location:151266
      PDE4_UCR; Phosphodiesterase 4 upstream conserved regions (UCR)

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086023.1 Reference GRCr8

      Range
      122028956..122598267
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039109275.2XP_038965203.1  3',5'-cyclic-AMP phosphodiesterase 4B isoform X3

      Conserved Domains (2) summary
      pfam18100
      Location:166281
      PDE4_UCR; Phosphodiesterase 4 upstream conserved regions (UCR)
      cl21469
      Location:405428
      HDc; Metal dependent phosphohydrolases with conserved 'HD' motif
    2. XM_039109272.2XP_038965200.1  3',5'-cyclic-AMP phosphodiesterase 4B isoform X1

      Related
      ENSRNOP00000096704.2, ENSRNOT00000098470.2
      Conserved Domains (2) summary
      pfam00233
      Location:328569
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam18100
      Location:89204
      PDE4_UCR; Phosphodiesterase 4 upstream conserved regions (UCR)
    3. XM_039109274.2XP_038965202.1  3',5'-cyclic-AMP phosphodiesterase 4B isoform X2

      UniProtKB/TrEMBL
      A0A8L2Q3F0, A6JRR2
      Related
      ENSRNOP00000007738.5, ENSRNOT00000007738.8
      Conserved Domains (2) summary
      pfam00233
      Location:172413
      PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
      pfam18100
      Location:1648
      PDE4_UCR; Phosphodiesterase 4 upstream conserved regions (UCR)
    4. XM_063287160.1XP_063143230.1  3',5'-cyclic-AMP phosphodiesterase 4B isoform X4

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