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Slc66a1 solute carrier family 66 member 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 362642, updated on 10-Oct-2024

Summary

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Official Symbol
Slc66a1provided by RGD
Official Full Name
solute carrier family 66 member 1provided by RGD
Primary source
RGD:1311627
See related
EnsemblRapid:ENSRNOG00000017706 AllianceGenome:RGD:1311627
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
Pqlc2
Summary
Enables basic amino acid transmembrane transporter activity. Involved in amino acid homeostasis. Located in lysosomal membrane. Orthologous to human SLC66A1 (solute carrier family 66 member 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Spleen (RPKM 50.5), Kidney (RPKM 36.2) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Slc66a1 in Genome Data Viewer
Location:
5q36
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (156821084..156835558, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (151537870..151552259, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (157744945..157759370, complement)

Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134487024 Neighboring gene capping actin protein of muscle Z-line subunit beta Neighboring gene 60S ribosomal protein L21 pseudogene Neighboring gene aldo-keto reductase family 7, member A2 Neighboring gene ribosomal protein L9, pseudogene 6

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. LAAT-1 is the lysosomal lysine/arginine transporter that maintains amino acid homeostasis. Liu B, et al. Science, 2012 Jul 20. PMID 22822152, Free PMC Article
  2. Heptahelical protein PQLC2 is a lysosomal cationic amino acid exporter underlying the action of cysteamine in cystinosis therapy. Jézégou A, et al. Proc Natl Acad Sci U S A, 2012 Dec 11. PMID 23169667, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. 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

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables L-arginine transmembrane transporter activity IEA
Inferred from Electronic Annotation
more info
  
enables L-arginine transmembrane transporter activity ISO
Inferred from Sequence Orthology
more info
  
enables L-histidine transmembrane transporter activity IEA
Inferred from Electronic Annotation
more info
  
enables L-histidine transmembrane transporter activity ISO
Inferred from Sequence Orthology
more info
  
enables L-lysine transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables L-lysine transmembrane transporter activity IEA
Inferred from Electronic Annotation
more info
  
enables L-lysine transmembrane transporter activity ISO
Inferred from Sequence Orthology
more info
  
enables basic amino acid transmembrane transporter activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in L-arginine transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
involved_in L-arginine transmembrane transport ISO
Inferred from Sequence Orthology
more info
  
involved_in L-histidine transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
involved_in L-histidine transmembrane transport ISO
Inferred from Sequence Orthology
more info
  
involved_in L-lysine transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
involved_in L-lysine transmembrane transport ISO
Inferred from Sequence Orthology
more info
  
involved_in intracellular amino acid homeostasis IEA
Inferred from Electronic Annotation
more info
  
involved_in intracellular amino acid homeostasis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in intracellular amino acid homeostasis ISO
Inferred from Sequence Orthology
more info
  
involved_in lysine transport IEA
Inferred from Electronic Annotation
more info
  
involved_in lysine transport ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
  
is_active_in lysosomal membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in lysosomal membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in lysosomal membrane IEA
Inferred from Electronic Annotation
more info
  
located_in lysosomal membrane ISO
Inferred from Sequence Orthology
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
located_in organelle membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
lysosomal amino acid transporter 1 homolog
Names
PQ loop repeat containing 2
PQ-loop repeat-containing protein 2

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_001399232.1 → NP_001386161.1  lysosomal amino acid transporter 1 homolog isoform 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000005
    UniProtKB/TrEMBL
    A0A8L2QDE2
    Related
    ENSRNOP00000023896.7, ENSRNOT00000023896.9

  2. NM_001399233.1 → NP_001386162.1  lysosomal amino acid transporter 1 homolog isoform 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000005
    UniProtKB/Swiss-Prot
    B0BMY1, F7FC79
    Conserved Domains (1) summary
    pfam04193
    Location:183 → 238
    PQ-loop; PQ loop repeat

  3. NM_001399234.1 → NP_001386163.1  lysosomal amino acid transporter 1 homolog isoform 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000005
    Related
    ENSRNOP00000107028.1, ENSRNOT00000157253.1

RNA

  1. NR_174173.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000005
    Related
    ENSRNOT00000099105.2

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
    156821084..156835558 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017593523.3 → XP_017449012.1  lysosomal amino acid transporter 1 homolog isoform X2

    Conserved Domains (1) summary
    pfam04193
    Location:170 → 224
    PQ-loop; PQ loop repeat

  2. XM_006239239.5 → XP_006239301.1  lysosomal amino acid transporter 1 homolog isoform X1

    See identical proteins and their annotated locations for XP_006239301.1

    UniProtKB/Swiss-Prot
    B0BMY1, F7FC79
    UniProtKB/TrEMBL
    A0A8I5Y800
    Conserved Domains (1) summary
    pfam04193
    Location:183 → 238
    PQ-loop; PQ loop repeat

  3. XM_063288076.1 → XP_063144146.1  lysosomal amino acid transporter 1 homolog isoform X2

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001108689.2: Suppressed sequence

    Description
    NM_001108689.2: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
B0BMY1.1 GenPept UniProtKB/Swiss-Prot:B0BMY1

Gene LinkOut

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