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    Slc66a2 solute carrier family 66 member 2 [ Mus musculus (house mouse) ]

    Gene ID: 66943, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Slc66a2provided by MGI
    Official Full Name
    solute carrier family 66 member 2provided by MGI
    Primary source
    MGI:MGI:1914193
    See related
    Ensembl:ENSMUSG00000034006 AllianceGenome:MGI:1914193
    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
    Pqlc1; 2310009N05Rik; 4933425L21Rik; 5730564E11Rik
    Summary
    Predicted to be involved in phospholipid translocation and retrograde transport, endosome to Golgi. Predicted to be located in membrane. Predicted to be active in endosome and trans-Golgi network. Is expressed in cerebral cortex; ganglia; liver; lung; and submandibular gland primordium. Orthologous to human SLC66A2 (solute carrier family 66 member 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in liver adult (RPKM 24.7), stomach adult (RPKM 23.6) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Slc66a2 in Genome Data Viewer
    Location:
    18 E3; 18 53.37 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (80298458..80335940)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (80255241..80292724)

    Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene thioredoxin-like 4A Neighboring gene N(alpha)-acetyltransferase 12, NatA catalytic subunit Neighboring gene heat shock factor binding protein 1-like 1 Neighboring gene STARR-seq mESC enhancer starr_45175 Neighboring gene potassium voltage-gated channel, subfamily G, member 2 Neighboring gene VISTA enhancer mm152 Neighboring gene predicted gene, 26676 Neighboring gene RIKEN cDNA D330025C20 gene

    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. 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
    2. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
    3. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
    4. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article
    5. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article

    See all (18) 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)
    • Gene trapped (1) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in phospholipid translocation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in retrograde transport, endosome to Golgi IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in trans-Golgi network IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    solute carrier family 66 member 2
    Names
    PQ loop repeat containing 1
    PQ-loop repeat-containing protein 1

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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_001164420.1 → NP_001157892.1  solute carrier family 66 member 2 isoform b

      See identical proteins and their annotated locations for NP_001157892.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and lacks an in-frame exon in the middle portion of the coding region, compared to variant 1. The encoded isoform (b) is shorter than isoform a. Variants 2, 3 and 4 encode the same isoform (b).
      Source sequence(s)
      AK153023, BB728808, BB843279
      Consensus CDS
      CCDS50334.1
      UniProtKB/Swiss-Prot
      Q80XM9
      Related
      ENSMUSP00000121890.2, ENSMUST00000123750.8
      Conserved Domains (1) summary
      pfam04193
      Location:152 → 212
      PQ-loop; PQ loop repeat

    2. NM_001164421.1 → NP_001157893.1  solute carrier family 66 member 2 isoform b

      See identical proteins and their annotated locations for NP_001157893.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an in-frame exon in the middle portion of the coding region, compared to variant 1. The encoded isoform (b) is shorter than isoform a. Variants 2, 3 and 4 encode the same isoform (b).
      Source sequence(s)
      AC145610, AK009256, BB728808, BB842599
      Consensus CDS
      CCDS50334.1
      UniProtKB/Swiss-Prot
      Q80XM9
      Related
      ENSMUSP00000069986.8, ENSMUST00000070135.8
      Conserved Domains (1) summary
      pfam04193
      Location:152 → 212
      PQ-loop; PQ loop repeat

    3. NM_001164422.1 → NP_001157894.1  solute carrier family 66 member 2 isoform b

      See identical proteins and their annotated locations for NP_001157894.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and lacks an in-frame exon in the middle portion of the coding region, compared to variant 1. The encoded isoform (b) is shorter than isoform a. Variants 2, 3 and 4 encode the same isoform (b).
      Source sequence(s)
      AK153023, BB728808, BY263686
      Consensus CDS
      CCDS50334.1
      UniProtKB/Swiss-Prot
      Q80XM9
      Related
      ENSMUSP00000118670.2, ENSMUST00000129043.8
      Conserved Domains (1) summary
      pfam04193
      Location:152 → 212
      PQ-loop; PQ loop repeat

    4. NM_001164423.1 → NP_001157895.1  solute carrier family 66 member 2 isoform c

      See identical proteins and their annotated locations for NP_001157895.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) differs in the 3' UTR and differs in the 3' coding region, compared to variant 1. The resulting isoform (c) has a distinct C-terminus and is shorter than isoform a. Both variants 5 and 6 encode the same isoform (c).
      Source sequence(s)
      AC145610, AK009256, AK047446, BB842599
      Consensus CDS
      CCDS89285.1
      UniProtKB/Swiss-Prot
      Q80XM9
      Related
      ENSMUSP00000157740.2, ENSMUST00000134545.3
      Conserved Domains (1) summary
      pfam04193
      Location:17 → 77
      PQ-loop; PQ loop repeat

    5. NM_001164424.1 → NP_001157896.1  solute carrier family 66 member 2 isoform c

      See identical proteins and their annotated locations for NP_001157896.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) differs in the 5' and 3' UTRs and differs in the 3' coding region, compared to variant 1. The resulting isoform (c) has a distinct C-terminus and is shorter than isoform a. Both variants 5 and 6 encode the same isoform (c).
      Source sequence(s)
      AK047446, BY263686
      Consensus CDS
      CCDS89285.1
      UniProtKB/Swiss-Prot
      Q80XM9
      Related
      ENSMUSP00000157569.2, ENSMUST00000151677.9
      Conserved Domains (1) summary
      pfam04193
      Location:17 → 77
      PQ-loop; PQ loop repeat

    6. NM_025861.3 → NP_080137.2  solute carrier family 66 member 2 isoform a

      See identical proteins and their annotated locations for NP_080137.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (a).
      Source sequence(s)
      AC145610, AK009256, AK018759, BB728808, BB842599, CJ135868
      Consensus CDS
      CCDS29367.1
      UniProtKB/Swiss-Prot
      Q3U6E6, Q80XM9, Q9CYA7, Q9D2D3, Q9D2V1, Q9D7G6
      Related
      ENSMUSP00000089402.4, ENSMUST00000091798.10
      Conserved Domains (1) summary
      pfam04193
      Location:170 → 230
      PQ-loop; PQ loop repeat

    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_000084.7 Reference GRCm39 C57BL/6J

      Range
      80298458..80335940
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006526520.5 → XP_006526583.1  solute carrier family 66 member 2 isoform X1

      See identical proteins and their annotated locations for XP_006526583.1

      UniProtKB/Swiss-Prot
      Q3U6E6, Q80XM9, Q9CYA7, Q9D2D3, Q9D2V1, Q9D7G6
      Related
      ENSMUSP00000117166.2, ENSMUST00000131780.8
      Conserved Domains (1) summary
      pfam04193
      Location:170 → 230
      PQ-loop; PQ loop repeat

    2. XM_030250575.2 → XP_030106435.1  solute carrier family 66 member 2 isoform X2

      Conserved Domains (1) summary
      pfam04193
      Location:17 → 77
      PQ-loop; PQ loop repeat

    3. XM_006526519.2 → XP_006526582.1  solute carrier family 66 member 2 isoform X1

      See identical proteins and their annotated locations for XP_006526582.1

      UniProtKB/Swiss-Prot
      Q3U6E6, Q80XM9, Q9CYA7, Q9D2D3, Q9D2V1, Q9D7G6
      Conserved Domains (1) summary
      pfam04193
      Location:170 → 230
      PQ-loop; PQ loop repeat

    4. XM_006526522.5 → XP_006526585.1  solute carrier family 66 member 2 isoform X2

      Conserved Domains (1) summary
      pfam04193
      Location:17 → 77
      PQ-loop; PQ loop repeat

    5. XM_017317970.3 → XP_017173459.1  solute carrier family 66 member 2 isoform X3

      Conserved Domains (1) summary
      pfam04193
      Location:87 → 147
      PQ-loop; PQ loop repeat

    RNA

    1. XR_386375.5 RNA Sequence

    2. XR_001782392.3 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q80XM9.1 GenPept UniProtKB/Swiss-Prot:Q80XM9

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