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    Scyl2 SCY1-like 2 (S. cerevisiae) [ Mus musculus (house mouse) ]

    Gene ID: 213326, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Scyl2provided by MGI
    Official Full Name
    SCY1-like 2 (S. cerevisiae)provided by MGI
    Primary source
    MGI:MGI:1289172
    See related
    Ensembl:ENSMUSG00000069539 AllianceGenome:MGI:1289172
    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
    CVAK104; D10Ertd802e
    Summary
    Predicted to enable signaling receptor binding activity. Involved in pyramidal neuron development. Predicted to be located in Golgi apparatus; clathrin-coated vesicle; and endosome membrane. Human ortholog(s) of this gene implicated in arthrogryposis multiplex congenita-4. Orthologous to human SCYL2 (SCY1 like pseudokinase 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in CNS E18 (RPKM 10.5), CNS E14 (RPKM 10.3) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Scyl2 in Genome Data Viewer
    Location:
    10 C2; 10 45.05 cM
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (89474582..89522179, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (89638720..89686317, complement)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_27520 Neighboring gene STARR-positive B cell enhancer ABC_E1404 Neighboring gene STARR-seq mESC enhancer starr_27521 Neighboring gene nuclear receptor subfamily 1, group H, member 4 Neighboring gene solute carrier family 17 (sodium-dependent inorganic phosphate cotransporter), member 8 Neighboring gene RIKEN cDNA 1500026H17 gene Neighboring gene STARR-positive B cell enhancer ABC_E5164 Neighboring gene STARR-seq mESC enhancer starr_27523 Neighboring gene STARR-positive B cell enhancer ABC_E2334 Neighboring gene ARP6 actin-related protein 6

    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. SCYL2 Protects CA3 Pyramidal Neurons from Excitotoxicity during Functional Maturation of the Mouse Hippocampus. Gingras S, et al. J Neurosci, 2015 Jul 22. PMID 26203146, Free PMC Article
    2. Clathrin-dependent association of CVAK104 with endosomes and the trans-Golgi network. Düwel M, et al. Mol Biol Cell, 2006 Oct. PMID 16914521, Free PMC Article
    3. A coated vesicle-associated kinase of 104 kDa (CVAK104) induces lysosomal degradation of frizzled 5 (Fzd5). Terabayashi T, et al. J Biol Chem, 2009 Sep 25. PMID 19643732, Free PMC Article
    4. Fancd2 in vivo interaction network reveals a non-canonical role in mitochondrial function. Zhang T, et al. Sci Rep, 2017 Apr 5. PMID 28378742, Free PMC Article
    5. BioID screening of biotinylation sites using the avidin-like protein Tamavidin 2-REV identifies global interactors of stimulator of interferon genes (STING). Motani K, et al. J Biol Chem, 2020 Aug 7. PMID 32554809, Free PMC Article

    See all (21) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. our findings clearly establish the SCY1-like family of protein pseudokinases as key regulators of neuronal function and survival.
      Title: SCYL2 Protects CA3 Pyramidal Neurons from Excitotoxicity during Functional Maturation of the Mouse Hippocampus.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables signaling receptor binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables signaling receptor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in brain development IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in clathrin-dependent endocytosis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in clathrin-dependent endocytosis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endosome to lysosome transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in endosome to lysosome transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of canonical Wnt signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of negative regulation of canonical Wnt signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in pyramidal neuron development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in receptor internalization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in receptor internalization ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in clathrin-coated vesicle IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endosome membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    SCY1-like protein 2
    Names
    coated vesicle-associated kinase of 104 kDa

    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_001310704.2 → NP_001297633.1  SCY1-like protein 2 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC127279, AI661906
      Consensus CDS
      CCDS78881.1
      UniProtKB/TrEMBL
      G5E8J9
      Related
      ENSMUSP00000089874.6, ENSMUST00000092227.12
      Conserved Domains (4) summary
      smart00220
      Location:32 → 327
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      pfam08430
      Location:741 → 873
      Forkhead_N; Forkhead N-terminal region
      cd14011
      Location:38 → 329
      PK_SCY1_like; Pseudokinase domain of Scy1-like proteins
      sd00044
      Location:373 → 403
      HEAT; HEAT repeat [structural motif]

    2. NM_001358843.1 → NP_001345772.1  SCY1-like protein 2 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC127279, AI661906, CB247519, CN528758
      Conserved Domains (3) summary
      cd14011
      Location:38 → 329
      PK_SCY1_like; Pseudokinase domain of Scy1-like proteins
      sd00044
      Location:373 → 403
      HEAT; HEAT repeat [structural motif]
      pfam08430
      Location:745 → 883
      Forkhead_N; Forkhead N-terminal region

    3. NM_198021.3 → NP_932138.1  SCY1-like protein 2 isoform 1

      See identical proteins and their annotated locations for NP_932138.1

      Status: VALIDATED

      Source sequence(s)
      AC127279, AI661906
      Consensus CDS
      CCDS36027.1
      UniProtKB/Swiss-Prot
      Q3UT57, Q3UWU9, Q8CFE4, Q8K0M4
      Related
      ENSMUSP00000133992.2, ENSMUST00000174252.8
      Conserved Domains (4) summary
      smart00220
      Location:32 → 327
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      pfam08430
      Location:742 → 874
      Forkhead_N; Forkhead N-terminal region
      cd14011
      Location:38 → 329
      PK_SCY1_like; Pseudokinase domain of Scy1-like proteins
      sd00044
      Location:373 → 403
      HEAT; HEAT repeat [structural motif]

    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_000076.7 Reference GRCm39 C57BL/6J

      Range
      89474582..89522179 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011243394.3 → XP_011241696.1  SCY1-like protein 2 isoform X1

      Conserved Domains (3) summary
      cd14011
      Location:38 → 329
      PK_SCY1_like; Pseudokinase domain of Scy1-like proteins
      sd00044
      Location:373 → 403
      HEAT; HEAT repeat [structural motif]
      pfam08430
      Location:746 → 884
      Forkhead_N; Forkhead N-terminal region

    2. XM_036155724.1 → XP_036011617.1  SCY1-like protein 2 isoform X2

      Conserved Domains (1) summary
      cd14011
      Location:38 → 329
      PK_SCY1_like; Pseudokinase domain of Scy1-like proteins
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8CFE4.1 GenPept UniProtKB/Swiss-Prot:Q8CFE4

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Other Literature Sources
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