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    Syndig1l synapse differentiation inducing 1 like [ Mus musculus (house mouse) ]

    Gene ID: 627191, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Syndig1lprovided by MGI
    Official Full Name
    synapse differentiation inducing 1 likeprovided by MGI
    Primary source
    MGI:MGI:2685107
    See related
    Ensembl:ENSMUSG00000071234 AllianceGenome:MGI:2685107
    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
    DSPC1; Gm261; SynDIG2; Tmem90a
    Summary
    Located in Golgi apparatus. Is expressed in male reproductive gland or organ; nervous system; and retina layer. Orthologous to human SYNDIG1L (synapse differentiation inducing 1 like). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in cerebellum adult (RPKM 5.4), testis adult (RPKM 4.8) and 6 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Syndig1l in Genome Data Viewer
    Location:
    12 D1; 12 39.33 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (84724051..84745720, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (84677277..84698947, complement)

    Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_32746 Neighboring gene ATP-binding cassette, sub-family D member 4 Neighboring gene STARR-seq mESC enhancer starr_32747 Neighboring gene STARR-seq mESC enhancer starr_32748 Neighboring gene vertebrae development associated Neighboring gene STARR-seq mESC enhancer starr_32749 Neighboring gene STARR-positive B cell enhancer mm9_chr12:86096267-86096568 Neighboring gene NPC intracellular cholesterol transporter 2 Neighboring gene iron-sulfur cluster assembly 2

    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. Capucin does not modify the toxicity of a mutant Huntingtin fragment in vivo. Galvan L, et al. Neurobiol Aging, 2012 Aug. PMID 22365050
    2. Capucin: a novel striatal marker down-regulated in rodent models of Huntington disease. de Chaldée M, et al. Genomics, 2006 Feb. PMID 16359841
    3. SynDIG1: an activity-regulated, AMPA- receptor-interacting transmembrane protein that regulates excitatory synapse development. Kalashnikova E, et al. Neuron, 2010 Jan 14. PMID 20152115, Free PMC Article
    4. MEGF10 and MEGF11 mediate homotypic interactions required for mosaic spacing of retinal neurons. Kay JN, et al. Nature, 2012 Mar 11. PMID 22407321, Free PMC Article
    5. Mapping brain gene coexpression in daytime transcriptomes unveils diurnal molecular networks and deciphers perturbation gene signatures. Wang N, et al. Neuron, 2022 Oct 19. PMID 36265442, Free PMC Article

    See all (19) 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 (1) 
    • Targeted (4)  1 citation

    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 biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in intracellular membrane-bounded organelle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    synapse differentiation-inducing gene protein 1-like
    Names
    capucin
    caudate and putamen-enriched protein
    dispanin subfamily C member 1
    synapse differentiation-induced protein 2
    transmembrane protein 90a

    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_001033334.2 → NP_001028506.1  synapse differentiation-inducing gene protein 1-like

      See identical proteins and their annotated locations for NP_001028506.1

      Status: VALIDATED

      Source sequence(s)
      AC159641
      Consensus CDS
      CCDS26049.1
      UniProtKB/Swiss-Prot
      Q3USQ7
      UniProtKB/TrEMBL
      B2RRM8
      Related
      ENSMUSP00000093206.3, ENSMUST00000095550.4
      Conserved Domains (1) summary
      pfam04505
      Location:156 → 216
      CD225; Interferon-induced transmembrane 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_000078.7 Reference GRCm39 C57BL/6J

      Range
      84724051..84745720 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030246834.2 → XP_030102694.1  synapse differentiation-inducing gene protein 1-like isoform X1

    2. XM_030246836.2 → XP_030102696.1  synapse differentiation-inducing gene protein 1-like isoform X1

    3. XM_030246835.2 → XP_030102695.1  synapse differentiation-inducing gene protein 1-like isoform X1

    4. XM_006516125.4 → XP_006516188.1  synapse differentiation-inducing gene protein 1-like isoform X2

      See identical proteins and their annotated locations for XP_006516188.1

      UniProtKB/Swiss-Prot
      Q3USQ7
      UniProtKB/TrEMBL
      B2RRM8
      Related
      ENSMUSP00000152374.2, ENSMUST00000222422.2
      Conserved Domains (1) summary
      pfam04505
      Location:156 → 216
      CD225; Interferon-induced transmembrane protein

    5. XM_006516124.4 → XP_006516187.1  synapse differentiation-inducing gene protein 1-like isoform X2

      See identical proteins and their annotated locations for XP_006516187.1

      UniProtKB/Swiss-Prot
      Q3USQ7
      UniProtKB/TrEMBL
      B2RRM8
      Conserved Domains (1) summary
      pfam04505
      Location:156 → 216
      CD225; Interferon-induced transmembrane protein

    6. XM_036157555.1 → XP_036013448.1  synapse differentiation-inducing gene protein 1-like isoform X2

      UniProtKB/Swiss-Prot
      Q3USQ7
      UniProtKB/TrEMBL
      B2RRM8
      Conserved Domains (1) summary
      pfam04505
      Location:156 → 216
      CD225; Interferon-induced transmembrane protein
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3USQ7.1 GenPept UniProtKB/Swiss-Prot:Q3USQ7

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