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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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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

Gene LinkOut

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