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    Abhd13 abhydrolase domain containing 13 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 306630, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Abhd13provided by RGD
    Official Full Name
    abhydrolase domain containing 13provided by RGD
    Primary source
    RGD:1308317
    See related
    EnsemblRapid:ENSRNOG00000014598 AllianceGenome:RGD:1308317
    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
    RGD1308317
    Summary
    Predicted to enable palmitoyl-(protein) hydrolase activity. Predicted to be involved in lipid metabolic process and protein depalmitoylation. Predicted to be located in dendrite cytoplasm. Predicted to be active in membrane. Orthologous to human ABHD13 (abhydrolase domain containing 13). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 93.9), Kidney (RPKM 85.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Abhd13 in Genome Data Viewer
    Location:
    16q12.5
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (86203851..86218843, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (79501879..79516712, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (85315275..85330108, complement)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene myosin XVI Neighboring gene TNF superfamily member 13b Neighboring gene uncharacterized LOC120097573 Neighboring gene DNA ligase 4

    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. Identification of PSD-95 Depalmitoylating Enzymes. Yokoi N, et al. J Neurosci, 2016 Jun 15. PMID 27307232, Free PMC Article
    2. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables palmitoyl-(protein) hydrolase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables palmitoyl-(protein) hydrolase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in macromolecule depalmitoylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein depalmitoylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in dendrite cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    protein ABHD13
    Names
    abhydrolase domain-containing protein 13
    alpha/beta hydrolase domain-containing protein 13

    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_001271072.1 → NP_001258001.1  protein ABHD13

      See identical proteins and their annotated locations for NP_001258001.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000016
      UniProtKB/TrEMBL
      A6IWS0, A6IWS1, D4A1B6
      Related
      ENSRNOP00000101323.1, ENSRNOT00000165902.1
      Conserved Domains (2) summary
      pfam00561
      Location:115 → 300
      Abhydrolase_1; alpha/beta hydrolase fold
      pfam12695
      Location:116 → 299
      Abhydrolase_5; Alpha/beta hydrolase family

    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_086034.1 Reference GRCr8

      Range
      86203851..86218843 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006253478.5 → XP_006253540.1  protein ABHD13 isoform X1

      See identical proteins and their annotated locations for XP_006253540.1

      UniProtKB/TrEMBL
      A6IWS0, A6IWS1, D4A1B6
      Related
      ENSRNOP00000110638.1, ENSRNOT00000171512.1
      Conserved Domains (2) summary
      pfam00561
      Location:115 → 300
      Abhydrolase_1; alpha/beta hydrolase fold
      pfam12695
      Location:116 → 299
      Abhydrolase_5; Alpha/beta hydrolase family

    2. XM_008771396.4 → XP_008769618.1  protein ABHD13 isoform X1

      See identical proteins and their annotated locations for XP_008769618.1

      UniProtKB/TrEMBL
      A6IWS0, A6IWS1, D4A1B6
      Conserved Domains (2) summary
      pfam00561
      Location:115 → 300
      Abhydrolase_1; alpha/beta hydrolase fold
      pfam12695
      Location:116 → 299
      Abhydrolase_5; Alpha/beta hydrolase family

    3. XM_006253479.5 → XP_006253541.1  protein ABHD13 isoform X1

      See identical proteins and their annotated locations for XP_006253541.1

      UniProtKB/TrEMBL
      A6IWS0, A6IWS1, D4A1B6
      Conserved Domains (2) summary
      pfam00561
      Location:115 → 300
      Abhydrolase_1; alpha/beta hydrolase fold
      pfam12695
      Location:116 → 299
      Abhydrolase_5; Alpha/beta hydrolase family

    4. XM_008771395.4 → XP_008769617.1  protein ABHD13 isoform X1

      See identical proteins and their annotated locations for XP_008769617.1

      UniProtKB/TrEMBL
      A6IWS0, A6IWS1, D4A1B6
      Conserved Domains (2) summary
      pfam00561
      Location:115 → 300
      Abhydrolase_1; alpha/beta hydrolase fold
      pfam12695
      Location:116 → 299
      Abhydrolase_5; Alpha/beta hydrolase family

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001107327.1: Suppressed sequence

      Description
      NM_001107327.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.
    Nucleotide Protein Strain
    Heading Accession and Version

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