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Abcd4 ATP binding cassette subfamily D member 4 [ Rattus norvegicus (Norway rat) ]

Gene ID: 299196, updated on 13-Apr-2024

Summary

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Official Symbol
Abcd4provided by RGD
Official Full Name
ATP binding cassette subfamily D member 4provided by RGD
Primary source
RGD:1307273
See related
Ensembl:ENSRNOG00000011964 AllianceGenome:RGD:1307273
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
Pxmp1l
Summary
Predicted to enable ABC-type vitamin B12 transporter activity; ATP binding activity; and long-chain fatty acid transporter activity. Predicted to be involved in several processes, including cobalamin transport; fatty acid catabolic process; and long-chain fatty acid import into peroxisome. Predicted to act upstream of or within cellular response to leukemia inhibitory factor. Predicted to be located in endoplasmic reticulum membrane; lysosomal membrane; and peroxisome. Predicted to be active in peroxisomal membrane. Orthologous to human ABCD4 (ATP binding cassette subfamily D member 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Kidney (RPKM 47.2), Thymus (RPKM 31.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
6q31
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (109977541..109992050, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (104246459..104260965, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (108315026..108329550, complement)

Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene lin-52 DREAM MuvB core complex component Neighboring gene visual system homeobox 2 Neighboring gene U6 spliceosomal RNA Neighboring gene vertebrae development associated

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. Mutations in ABCD4 cause a new inborn error of vitamin B12 metabolism. Coelho D, et al. Nat Genet, 2012 Oct. PMID 22922874
  2. Identification of a fourth half ABC transporter in the human peroxisomal membrane. Shani N, et al. Hum Mol Genet, 1997 Oct. PMID 9302272
  3. Translocation of the ABC transporter ABCD4 from the endoplasmic reticulum to lysosomes requires the escort protein LMBD1. Kawaguchi K, et al. Sci Rep, 2016 Jul 26. PMID 27456980, Free PMC Article
  4. Targeting of the human adrenoleukodystrophy protein to the peroxisomal membrane by an internal region containing a highly conserved motif. Landgraf P, et al. Eur J Cell Biol, 2003 Aug. PMID 14533738
  5. 70-kDa peroxisomal membrane protein related protein (P70R/ABCD4) localizes to endoplasmic reticulum not peroxisomes, and NH2-terminal hydrophobic property determines the subcellular localization of ABC subfamily D proteins. Kashiwayama Y, et al. Exp Cell Res, 2009 Jan 15. PMID 19010322

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. P70R resides in the ER but not the peroxisomal membranes, and the hydrophobic property of NH(2)-terminal region determines the subcellular localization of ABC subfamily D proteins.
    Title: 70-kDa peroxisomal membrane protein related protein (P70R/ABCD4) localizes to endoplasmic reticulum not peroxisomes, and NH2-terminal hydrophobic property determines the subcellular localization of ABC subfamily D proteins.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Clone Names

  • MGC105956

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ABC-type vitamin B12 transporter activity ISO
Inferred from Sequence Orthology
more info
  
enables ATP binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ATP hydrolysis activity IEA
Inferred from Electronic Annotation
more info
  
enables ATPase-coupled transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables long-chain fatty acid transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within cellular response to leukemia inhibitory factor ISO
Inferred from Sequence Orthology
more info
  
involved_in cobalamin metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in cobalamin transport ISO
Inferred from Sequence Orthology
more info
  
involved_in fatty acid beta-oxidation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in long-chain fatty acid import into peroxisome IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in peroxisome organization IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in very long-chain fatty acid catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in endoplasmic reticulum membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in lysosomal membrane ISO
Inferred from Sequence Orthology
more info
  
located_in lysosomal membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in peroxisomal membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
NOT located_in peroxisome ISO
Inferred from Sequence Orthology
more info
  
located_in peroxisome ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
lysosomal cobalamin transporter ABCD4
Names
ATP-binding cassette, sub-family D (ALD), member 4
ATP-binding cassette, sub-family D, member 4
ATP-binding cassette, subfamily D (ALD), member 4
NP_001013118.2
XP_038967964.1
XP_063117807.1
XP_063117808.1
XP_063117809.1

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_001013100.3 → NP_001013118.2  lysosomal cobalamin transporter ABCD4

    See identical proteins and their annotated locations for NP_001013118.2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000006
    UniProtKB/TrEMBL
    A6JDX5
    Conserved Domains (1) summary
    TIGR00954
    Location:9 → 600
    3a01203; Peroxysomal Fatty Acyl CoA Transporter (FAT) Family protein

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_086024.1 Reference GRCr8

    Range
    109977541..109992050 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063261737.1 → XP_063117807.1  lysosomal cobalamin transporter ABCD4 isoform X1

  2. XM_063261738.1 → XP_063117808.1  lysosomal cobalamin transporter ABCD4 isoform X2

  3. XM_063261739.1 → XP_063117809.1  lysosomal cobalamin transporter ABCD4 isoform X3

  4. XM_039112036.1 → XP_038967964.1  lysosomal cobalamin transporter ABCD4 isoform X4

    Conserved Domains (1) summary
    pfam06472
    Location:27 → 294
    ABC_membrane_2; ABC transporter transmembrane region 2

RNA

  1. XR_005505483.2 RNA Sequence

  2. XR_010052070.1 RNA Sequence

  3. XR_005505486.2 RNA Sequence

  4. XR_005505485.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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