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    Phykpl 5-phosphohydroxy-L-lysine phospho-lyase [ Rattus norvegicus (Norway rat) ]

    Gene ID: 100169747, updated on 9-Dec-2024

    Summary

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    Symbol
    Phykplprovided by RGD
    Full Name
    5-phosphohydroxy-L-lysine phospho-lyaseprovided by RGD
    Primary source
    RGD:2293818
    See related
    EnsemblRapid:ENSRNOG00000047933 AllianceGenome:RGD:2293818
    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
    Agxt2l2
    Summary
    Predicted to enable identical protein binding activity. Predicted to be located in mitochondrion. Orthologous to human PHYKPL (5-phosphohydroxy-L-lysine phospho-lyase). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 180.5), Kidney (RPKM 176.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Phykpl in Genome Data Viewer
    Location:
    10q22
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (36340905..36372555)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (35839965..35863631)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (34938661..34960661)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene collagen type XXIII alpha 1 chain Neighboring gene uncharacterized LOC120095095 Neighboring gene uncharacterized LOC134480786 Neighboring gene transfer RNA alanine (anticodon AGC) Neighboring gene heterogeneous nuclear ribonucleoprotein A/B Neighboring gene NHP2 ribonucleoprotein

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Gene and alternative splicing annotation with AIR. Florea L, et al. Genome Res, 2005 Jan. PMID 15632090, Free PMC Article
    2. Extensive disruption of protein interactions by genetic variants across the allele frequency spectrum in human populations. Fragoza R, et al. Nat Commun, 2019 Sep 12. PMID 31515488, Free PMC Article
    3. Towards a proteome-scale map of the human protein-protein interaction network. Rual JF, et al. Nature, 2005 Oct 20. PMID 16189514
    4. A mitochondrial protein compendium elucidates complex I disease biology. Pagliarini DJ, et al. Cell, 2008 Jul 11. PMID 18614015, Free PMC Article
    5. A proteome-scale map of the human interactome network. Rolland T, et al. Cell, 2014 Nov 20. PMID 25416956, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC188042

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables pyridoxal phosphate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transaminase activity IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    5-phosphohydroxy-L-lysine phospho-lyase
    Names
    alanine-glyoxylate aminotransferase 2-like 2
    NP_001121668.2
    XP_008765870.1
    XP_008765871.1
    XP_008765873.1
    XP_038940910.1
    XP_038940911.1
    XP_063124295.1
    XP_063124296.1
    XP_063124297.1
    XP_063124298.1
    XP_063124299.1
    XP_063124300.1

    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_001128196.2 → NP_001121668.2  5-phosphohydroxy-L-lysine phospho-lyase

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A8J8XD81, B0BNC4, D3ZFL7, F1LMP4
      Related
      ENSRNOP00000036405.5, ENSRNOT00000037303.7
      Conserved Domains (1) summary
      PRK06148
      Location:6 → 433
      PRK06148; hypothetical protein; Provisional

    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_086028.1 Reference GRCr8

      Range
      36340905..36372555
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008767648.4 → XP_008765870.1  5-phosphohydroxy-L-lysine phospho-lyase isoform X3

      See identical proteins and their annotated locations for XP_008765870.1

      UniProtKB/TrEMBL
      A0A8J8XD85
      Related
      ENSRNOP00000094939.2, ENSRNOT00000109370.2
      Conserved Domains (1) summary
      PRK06148
      Location:6 → 433
      PRK06148; hypothetical protein; Provisional

    2. XM_063268225.1 → XP_063124295.1  5-phosphohydroxy-L-lysine phospho-lyase isoform X4

      UniProtKB/TrEMBL
      A0A8J8XD85
      Related
      ENSRNOP00000071887.3, ENSRNOT00000086443.3

    3. XM_008767649.4 → XP_008765871.1  5-phosphohydroxy-L-lysine phospho-lyase isoform X5

      See identical proteins and their annotated locations for XP_008765871.1

      UniProtKB/TrEMBL
      A0A8J8XD85
      Conserved Domains (2) summary
      cd00610
      Location:31 → 433
      OAT_like; Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase, ...
      COG0160
      Location:15 → 435
      GabT; 4-aminobutyrate aminotransferase or related aminotransferase [Amino acid transport and metabolism]

    4. XM_039084982.2 → XP_038940910.1  5-phosphohydroxy-L-lysine phospho-lyase isoform X1

      UniProtKB/TrEMBL
      A0A8J8XD85
      Conserved Domains (1) summary
      PRK06148
      Location:6 → 433
      PRK06148; hypothetical protein; Provisional

    5. XM_008767651.4 → XP_008765873.1  5-phosphohydroxy-L-lysine phospho-lyase isoform X6

      See identical proteins and their annotated locations for XP_008765873.1

      UniProtKB/TrEMBL
      A0A0G2KB65
      Related
      ENSRNOP00000092306.2, ENSRNOT00000105114.2
      Conserved Domains (2) summary
      cd00610
      Location:31 → 433
      OAT_like; Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase, ...
      COG0160
      Location:15 → 435
      GabT; 4-aminobutyrate aminotransferase or related aminotransferase [Amino acid transport and metabolism]

    6. XM_039084983.2 → XP_038940911.1  5-phosphohydroxy-L-lysine phospho-lyase isoform X2

      UniProtKB/TrEMBL
      A0A0G2K1L2, A0A8J8XD85
      Conserved Domains (1) summary
      PRK06148
      Location:6 → 433
      PRK06148; hypothetical protein; Provisional

    7. XM_063268227.1 → XP_063124297.1  5-phosphohydroxy-L-lysine phospho-lyase isoform X8

    8. XM_063268226.1 → XP_063124296.1  5-phosphohydroxy-L-lysine phospho-lyase isoform X7

      UniProtKB/TrEMBL
      A0A8I6AGU7

    9. XM_063268228.1 → XP_063124298.1  5-phosphohydroxy-L-lysine phospho-lyase isoform X8

    10. XM_063268229.1 → XP_063124299.1  5-phosphohydroxy-L-lysine phospho-lyase isoform X9

    11. XM_063268230.1 → XP_063124300.1  5-phosphohydroxy-L-lysine phospho-lyase isoform X9

    RNA

    1. XR_010055102.1 RNA Sequence

    2. XR_005489653.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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