Format

Send to:

Choose Destination

Pdxdc1 pyridoxal-dependent decarboxylase domain containing 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 304721, updated on 2-Oct-2021

Summary

Symbol
Pdxdc1provided by RGD
Full Name
pyridoxal-dependent decarboxylase domain containing 1provided by RGD
Primary source
RGD:1562597
See related
EnsemblRapid:ENSRNOG00000002407
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1562597
Expression
Biased expression in Kidney (RPKM 179.3), Liver (RPKM 166.3) and 9 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See Pdxdc1 in Genome Data Viewer
Location:
10q11
Exon count:
26
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (2025056..2113712)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (3232794..3321438, complement)

Chromosome 10 - NC_051345.1Genomic Context describing neighboring genes Neighboring gene putative 60S ribosomal protein L13a protein RPL13AP3 Neighboring gene bMERB domain containing 1 Neighboring gene nuclear receptor coactivator 4-like Neighboring gene MPV17 mitochondrial inner membrane protein like Neighboring gene uncharacterized LOC102552514 Neighboring gene N-terminal asparagine amidase Neighboring gene RRN3 homolog, RNA polymerase I transcription factor

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

General gene information

Markers

Homology

Clone Names

  • MGC189517

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables carbon-carbon 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
Names
pyridoxal-dependent decarboxylase domain-containing protein 1-like
NP_001128433.1
XP_006245767.1
XP_006245770.1
XP_038942164.1
XP_038942165.1
XP_038942166.1
XP_038942167.1
XP_038942168.1

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_001134961.1NP_001128433.1  pyridoxal-dependent decarboxylase domain-containing protein 1

    See identical proteins and their annotated locations for NP_001128433.1

    Status: PROVISIONAL

    Source sequence(s)
    CH474017
    UniProtKB/TrEMBL
    G3V6B0
    Related
    ENSRNOP00000003284.5, ENSRNOT00000003284.6
    Conserved Domains (1) summary
    cl18945
    Location:203394
    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: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

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

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051345.1 Reference mRatBN7.2 Primary Assembly

    Range
    2025056..2113712
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039086236.1XP_038942164.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform X2

    Related
    ENSRNOP00000074368.2, ENSRNOT00000089118.2
    Conserved Domains (1) summary
    cl18945
    Location:188379
    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_039086238.1XP_038942166.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform X4

    Related
    ENSRNOP00000076319.2, ENSRNOT00000093722.2
    Conserved Domains (1) summary
    cl18945
    Location:181372
    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_006245705.4XP_006245767.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform X1

    Conserved Domains (1) summary
    cl18945
    Location:202393
    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_039086239.1XP_038942167.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform X5

    Conserved Domains (1) summary
    cl18945
    Location:194371
    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_006245708.4XP_006245770.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform X2

    Conserved Domains (1) summary
    cl18945
    Location:188379
    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 ...
  6. XM_039086237.1XP_038942165.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform X3

    Conserved Domains (1) summary
    cl18945
    Location:187378
    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 ...
  7. XM_039086240.1XP_038942168.1  pyridoxal-dependent decarboxylase domain-containing protein 1 isoform X6

    Conserved Domains (1) summary
    cl18945
    Location:166357
    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 ...
Support Center