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    Hacd4 3-hydroxyacyl-CoA dehydratase 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362540, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Hacd4provided by RGD
    Official Full Name
    3-hydroxyacyl-CoA dehydratase 4provided by RGD
    Primary source
    RGD:1310339
    See related
    EnsemblRapid:ENSRNOG00000005772 AllianceGenome:RGD:1310339
    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
    Ptplad2; RGD1310339
    Summary
    Predicted to enable enzyme binding activity and very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase activity. Predicted to be involved in fatty acid elongation; sphingolipid biosynthetic process; and very long-chain fatty acid biosynthetic process. Predicted to be located in endoplasmic reticulum. Predicted to be active in endoplasmic reticulum membrane. Orthologous to human HACD4 (3-hydroxyacyl-CoA dehydratase 4). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Lung (RPKM 82.2), Spleen (RPKM 49.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Hacd4 in Genome Data Viewer
    Location:
    5q32
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (107935514..107961271, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (102887597..102915376, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (106728401..106758068, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene MLLT3, super elongation complex subunit Neighboring gene small nucleolar RNA SNORA17 Neighboring gene focadhesin Neighboring gene interferon beta 1 Neighboring gene interferon, alpha 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 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. Characterization of four mammalian 3-hydroxyacyl-CoA dehydratases involved in very long-chain fatty acid synthesis. Ikeda M, et al. FEBS Lett, 2008 Jul 9. PMID 18554506
    2. 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 3-hydroxyacyl-CoA dehydratase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables enzyme binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in fatty acid elongation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in fatty acid elongation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in sphingolipid biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in very long-chain fatty acid biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in very long-chain fatty acid biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 4
    Names
    protein tyrosine phosphatase-like A domain containing 2
    protein tyrosine phosphatase-like protein PTPLAD2
    NP_001102139.1
    XP_006238438.1
    XP_038966193.1
    XP_063144013.1

    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_001108669.1 → NP_001102139.1  very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 4

      See identical proteins and their annotated locations for NP_001102139.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474094
      UniProtKB/TrEMBL
      A6KRA5
      Related
      ENSRNOP00000095794.2, ENSRNOT00000101049.2
      Conserved Domains (1) summary
      pfam04387
      Location:65 → 222
      PTPLA; Protein tyrosine phosphatase-like protein, PTPLA

    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
      107935514..107961271 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006238376.5 → XP_006238438.1  very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 4 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AU59
      Related
      ENSRNOP00000099570.1, ENSRNOT00000139632.1
      Conserved Domains (1) summary
      pfam04387
      Location:65 → 209
      PTPLA; Protein tyrosine phosphatase-like protein, PTPLA

    2. XM_039110265.2 → XP_038966193.1  very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 4 isoform X2

      UniProtKB/TrEMBL
      D3Z8V6
      Related
      ENSRNOP00000034988.4, ENSRNOT00000033651.7
      Conserved Domains (1) summary
      pfam04387
      Location:65 → 206
      PTPLA; Protein tyrosine phosphatase-like protein, PTPLA

    3. XM_063287943.1 → XP_063144013.1  very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 4 isoform X3

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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