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    Pdxdc1 pyridoxal-dependent decarboxylase domain containing 1 [ Mus musculus (house mouse) ]

    Gene ID: 94184, updated on 23-Jun-2021

    Summary

    Official Symbol
    Pdxdc1provided by MGI
    Official Full Name
    pyridoxal-dependent decarboxylase domain containing 1provided by MGI
    Primary source
    MGI:MGI:1920909
    See related
    Ensembl:ENSMUSG00000022680
    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
    AA415817; Kiaa0251-hp; 2210010A19Rik
    Expression
    Ubiquitous expression in testis adult (RPKM 34.6), colon adult (RPKM 34.4) and 28 other tissues See more
    Orthologs
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    Genomic context

    See Pdxdc1 in Genome Data Viewer
    Location:
    16; 16 A1
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (13651025..13721018, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (13833145..13903176, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 16 NC_000082.5 (13834023..13903228, complement)

    Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene elongin-B pseudogene Neighboring gene RRN3 RNA polymerase I transcription factor homolog (yeast) Neighboring gene N-terminal Asn amidase Neighboring gene nudix (nucleoside diphosphate linked moiety X)-type motif 4 pseudogene Neighboring gene Mpv17 transgene, kidney disease mutant-like Neighboring gene laminin, gamma 1 pseudogene Neighboring gene interferon induced transmembrane protein 7 Neighboring gene bMERB domain containing 1

    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

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC8182

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables carboxy-lyase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables catalytic activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables lyase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables pyridoxal phosphate binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in carboxylic acid metabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in intracellular membrane-bounded organelle IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    pyridoxal-dependent decarboxylase domain-containing protein 1
    NP_001034622.1
    NP_001277946.1
    NP_001344154.1
    NP_444411.2
    XP_011244355.1
    XP_011244356.1
    XP_011244357.1
    XP_036016092.1
    XP_036016093.1

    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_001039533.2NP_001034622.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform 3

      See identical proteins and their annotated locations for NP_001034622.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an internal exon in the 3' coding region, which results in a frameshift, compared to variant 4. It encodes isoform 3 which is shorter and has a distinct C-terminus, compared to isoform 4.
      Source sequence(s)
      AC107769, AK004611, AK054329
      Consensus CDS
      CCDS37261.1
      UniProtKB/Swiss-Prot
      Q99K01
      Related
      ENSMUSP00000111471.3, ENSMUST00000115804.9
      Conserved Domains (1) summary
      cl18945
      Location:172394
      AAT_I; Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the ...
    2. NM_001291017.1NP_001277946.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform 4

      See identical proteins and their annotated locations for NP_001277946.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) encodes the longest isoform (4).
      Source sequence(s)
      AC107769, AK054329
      Consensus CDS
      CCDS70685.1
      UniProtKB/Swiss-Prot
      Q99K01
      UniProtKB/TrEMBL
      A0A0R4J034
      Related
      ENSMUSP00000023361.6, ENSMUST00000023361.12
      Conserved Domains (1) summary
      cl18945
      Location:172394
      AAT_I; Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the ...
    3. NM_001357225.1NP_001344154.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC107769
      Conserved Domains (1) summary
      cl18945
      Location:171393
      AAT_I; Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the ...
    4. NM_053181.3NP_444411.2  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform 1

      See identical proteins and their annotated locations for NP_444411.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) lacks the terminal exon used in variant 4 and its 3' terminal exon extends past a splice site that is used in variant 4. This results in a novel 3' coding region and 3' UTR, compared to variant 4. It encodes isoform 1 which is shorter and has a distinct C-terminus, compared to isoform 4.
      Source sequence(s)
      AC107769, AK030613, AK033107, AK054329, BY469248
      UniProtKB/Swiss-Prot
      Q99K01
      Related
      ENSMUST00000154150.8
      Conserved Domains (1) summary
      cl18945
      Location:172394
      AAT_I; Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the ...

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000082.7 Reference GRCm39 C57BL/6J

      Range
      13651025..13721018 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011246054.4XP_011244356.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform X2

      Conserved Domains (1) summary
      cl18945
      Location:171393
      AAT_I; Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the ...
    2. XM_011246053.3XP_011244355.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform X1

      Conserved Domains (1) summary
      cl18945
      Location:172394
      AAT_I; Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the ...
    3. XM_011246055.4XP_011244357.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform X3

      Conserved Domains (1) summary
      cl18945
      Location:150372
      AAT_I; Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the ...
    4. XM_036160199.1XP_036016092.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform X4

      Conserved Domains (1) summary
      cl18945
      Location:171393
      AAT_I; Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the ...
    5. XM_036160200.1XP_036016093.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform X5

      Conserved Domains (1) summary
      cl18945
      Location:172394
      AAT_I; Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the ...

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_178853.2: Suppressed sequence

      Description
      NM_178853.2: This RefSeq was temporarily suppressed because the splicing pattern of AK075829.1, which was used as its source, does not occur in any other transcripts.
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