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Hacd4 3-hydroxyacyl-CoA dehydratase 4 [ Mus musculus (house mouse) ]

Gene ID: 66775, updated on 27-Nov-2024

Summary

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Official Symbol
Hacd4provided by MGI
Official Full Name
3-hydroxyacyl-CoA dehydratase 4provided by MGI
Primary source
MGI:MGI:1914025
See related
Ensembl:ENSMUSG00000028497 AllianceGenome:MGI:1914025
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
Hcad4; Ptplad2; 4933428I03Rik
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. Is expressed in several structures, including central nervous system; heart valve; and retina. Orthologous to human HACD4 (3-hydroxyacyl-CoA dehydratase 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in bladder adult (RPKM 5.2), genital fat pad adult (RPKM 2.4) and 24 other tissues See more
Orthologs
human all
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Genomic context

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See Hacd4 in Genome Data Viewer
Location:
4 C4; 4 41.73 cM
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (88325924..88357175, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (88407687..88438936, complement)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3 Neighboring gene predicted gene, 34232 Neighboring gene STARR-positive B cell enhancer mm9_chr4:87680226-87680527 Neighboring gene STARR-positive B cell enhancer mm9_chr4:87681371-87681672 Neighboring gene STARR-seq mESC enhancer starr_10719 Neighboring gene STARR-positive B cell enhancer ABC_E8809 Neighboring gene STARR-seq mESC enhancer starr_10720 Neighboring gene focadhesin Neighboring gene microRNA 491 Neighboring gene STARR-seq mESC enhancer starr_10721 Neighboring gene STARR-seq mESC enhancer starr_10722 Neighboring gene STARR-seq mESC enhancer starr_10723 Neighboring gene STARR-seq mESC enhancer starr_10724 Neighboring gene interferon beta 1, fibroblast Neighboring gene interferon alpha 15

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

Bibliography

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Related articles in PubMed

  1. HACD1, a regulator of membrane composition and fluidity, promotes myoblast fusion and skeletal muscle growth. Blondelle J, et al. J Mol Cell Biol, 2015 Oct. PMID 26160855, Free PMC Article
  2. Endothelial Cyp26b1 restrains murine heart valve growth during development. Ahuja N, et al. Dev Biol, 2022 Jun. PMID 35364055
  3. Cell-Type-Specific Gene Expression in Developing Mouse Neocortex: Intermediate Progenitors Implicated in Axon Development. Bedogni F, et al. Front Mol Neurosci, 2021. PMID 34321999, Free PMC Article
  4. BGEM: an in situ hybridization database of gene expression in the embryonic and adult mouse nervous system. Magdaleno S, et al. PLoS Biol, 2006 Apr. PMID 16602821, Free PMC Article
  5. Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 2003 Nov 25. PMID 14610273, Free PMC Article

See all (15) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

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

General gene information

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Homology

Gene Ontology Provided by MGI

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 enzyme binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase activity ISO
Inferred from Sequence Orthology
more info
  
enables very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase activity ISS
Inferred from Sequence or Structural Similarity
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 fatty acid elongation ISS
Inferred from Sequence or Structural Similarity
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
  
involved_in very long-chain fatty acid biosynthetic process ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
  
located_in endoplasmic reticulum ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
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
protein-tyrosine phosphatase-like A domain-containing protein 2
very-long-chain (3R)-3-hydroxyacyl-[acyl-carrier protein] dehydratase 4
NP_001364027.1
NP_001364028.1
NP_001364029.1
NP_080036.1
XP_006538253.1
XP_006538255.1
XP_006538256.1

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_001377098.1 → NP_001364027.1  very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 4 isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a).
    Source sequence(s)
    AL772316
    UniProtKB/Swiss-Prot
    A2AKM1, A2AKM2, Q8BG85, Q9CPS2
    UniProtKB/TrEMBL
    F7CPS1
    Conserved Domains (1) summary
    pfam04387
    Location:65 → 223
    PTPLA; Protein tyrosine phosphatase-like protein, PTPLA

  2. NM_001377099.1 → NP_001364028.1  very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 4 isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3), as well as variants 1 and 2, encodes isoform a.
    Source sequence(s)
    AL772316
    UniProtKB/Swiss-Prot
    A2AKM1, A2AKM2, Q8BG85, Q9CPS2
    UniProtKB/TrEMBL
    F7CPS1
    Conserved Domains (1) summary
    pfam04387
    Location:65 → 223
    PTPLA; Protein tyrosine phosphatase-like protein, PTPLA

  3. NM_001377100.1 → NP_001364029.1  very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 4 isoform b

    Status: VALIDATED

    Source sequence(s)
    AL772316
    Conserved Domains (1) summary
    pfam04387
    Location:16 → 174
    PTPLA; Protein tyrosine phosphatase-like protein, PTPLA

  4. NM_025760.5 → NP_080036.1  very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 4 isoform a

    See identical proteins and their annotated locations for NP_080036.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2), as well as variants 1 and 3, encodes isoform a.
    Source sequence(s)
    AL772316
    Consensus CDS
    CCDS18317.1
    UniProtKB/Swiss-Prot
    A2AKM1, A2AKM2, Q8BG85, Q9CPS2
    UniProtKB/TrEMBL
    F7CPS1
    Related
    ENSMUSP00000030221.3, ENSMUST00000030221.3
    Conserved Domains (1) summary
    pfam04387
    Location:65 → 223
    PTPLA; Protein tyrosine phosphatase-like protein, PTPLA

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    88325924..88357175 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006538193.4 → XP_006538256.1  very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 4 isoform X3

    UniProtKB/TrEMBL
    F7CPS1
    Conserved Domains (1) summary
    pfam04387
    Location:65 → 205
    PTPLA; Protein tyrosine phosphatase-like protein, PTPLA

  2. XM_006538190.4 → XP_006538253.1  very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 4 isoform X1

    See identical proteins and their annotated locations for XP_006538253.1

    UniProtKB/Swiss-Prot
    A2AKM1, A2AKM2, Q8BG85, Q9CPS2
    UniProtKB/TrEMBL
    F7CPS1
    Conserved Domains (1) summary
    pfam04387
    Location:65 → 223
    PTPLA; Protein tyrosine phosphatase-like protein, PTPLA

  3. XM_006538192.4 → XP_006538255.1  very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 4 isoform X2

    UniProtKB/TrEMBL
    F7CPS1
    Conserved Domains (1) summary
    pfam04387
    Location:65 → 205
    PTPLA; Protein tyrosine phosphatase-like protein, PTPLA
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A2AKM2.2 GenPept UniProtKB/Swiss-Prot:A2AKM2

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