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    Abca16 ATP-binding cassette, sub-family A member 16 [ Mus musculus (house mouse) ]

    Gene ID: 233810, updated on 8-Feb-2024

    Summary

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    Official Symbol
    Abca16provided by MGI
    Official Full Name
    ATP-binding cassette, sub-family A member 16provided by MGI
    Primary source
    MGI:MGI:2388711
    See related
    Ensembl:ENSMUSG00000051900 AllianceGenome:MGI:2388711
    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
    Summary
    Predicted to enable ATPase-coupled transmembrane transporter activity and lipid transporter activity. Predicted to be involved in lipid transport. Predicted to be active in intracellular membrane-bounded organelle. Is expressed in testis. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Restricted expression toward testis adult (RPKM 8.6) See more
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    Genomic context

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    Location:
    7 F2; 7 64.86 cM
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (120008870..120144115)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (120409647..120544892)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene ATP-binding cassette, sub-family A member 14 Neighboring gene STARR-seq mESC enhancer starr_20044 Neighboring gene STARR-seq mESC enhancer starr_20045 Neighboring gene STARR-seq mESC enhancer starr_20046 Neighboring gene ATP-binding cassette, sub-family A member 15 Neighboring gene STARR-seq mESC enhancer starr_20047 Neighboring gene STARR-seq mESC enhancer starr_20049 Neighboring gene SEC14 and spectrin domains 1 pseudogene Neighboring gene predicted gene, 32916 Neighboring gene Y box protein 1 pseudogene Neighboring gene general transcription factor II H, polypeptide 1 pseudogene

    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. Three ATP-binding cassette transporter genes, Abca14, Abca15, and Abca16, form a cluster on mouse Chromosome 7F3. Chen ZQ, et al. Mamm Genome, 2004 May. PMID 15170222
    2. 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
    3. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    4. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
    5. RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer. Shibata K, et al. Genome Res, 2000 Nov. PMID 11076861, Free PMC Article

    See all (10) 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 (2) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATPase-coupled transmembrane transporter activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables lipid transporter activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in lipid transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in intracellular membrane-bounded organelle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    ATP-binding cassette transporter sub-family A member 16
    Names
    ATP-binding cassette, sub-family A (ABC1), member 16

    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_001278943.1 → NP_001265872.1  ATP-binding cassette transporter sub-family A member 16 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (isoform 1). The exon combination is inferred based on transcript alignments and protein homology.
      Source sequence(s)
      AC134434
      Conserved Domains (3) summary
      cd03263
      Location:164 → 381
      ABC_subfamily_A; ATP-binding cassette domain of the lipid transporters, subfamily A
      COG1131
      Location:1001 → 1310
      CcmA; ABC-type multidrug transport system, ATPase component [Defense mechanisms]
      pfam12698
      Location:652 → 885
      ABC2_membrane_3; ABC-2 family transporter protein

    2. NM_001278944.1 → NP_001265873.1  ATP-binding cassette transporter sub-family A member 16 isoform 2 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and represents use of an alternate promoter, and uses a downstream start codon, compared to variant 1. It encodes isoform 2 which has a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AC134434
      Conserved Domains (3) summary
      cd03263
      Location:76 → 294
      ABC_subfamily_A; ATP-binding cassette domain of the lipid transporters, subfamily A
      COG1131
      Location:914 → 1223
      CcmA; ABC-type multidrug transport system, ATPase component [Defense mechanisms]
      pfam12698
      Location:565 → 798
      ABC2_membrane_3; ABC-2 family transporter protein

    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_000073.7 Reference GRCm39 C57BL/6J

      Range
      120008870..120144115
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006507683.2 → XP_006507746.1  ATP-binding cassette transporter sub-family A member 16 isoform X1

      UniProtKB/TrEMBL
      E9PWJ7
      Related
      ENSMUSP00000112736.2, ENSMUST00000120490.8
      Conserved Domains (1) summary
      TIGR01257
      Location:196 → 1665
      rim_protein; retinal-specific rim ABC transporter
    Nucleotide Protein Strain
    Heading Accession and Version

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