U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    Scyl2 SCY1 like pseudokinase 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 314717, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Scyl2provided by RGD
    Official Full Name
    SCY1 like pseudokinase 2provided by RGD
    Primary source
    RGD:1305665
    See related
    EnsemblRapid:ENSRNOG00000024955 AllianceGenome:RGD:1305665
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1305665
    Summary
    Predicted to enable signaling receptor binding activity. Predicted to be involved in endosome to lysosome transport; pyramidal neuron development; and receptor-mediated endocytosis. 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, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 162.6), Kidney (RPKM 155.5) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Scyl2 in Genome Data Viewer
    Location:
    7q13
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (25951734..26004663, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (24064404..24117338, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (30291087..30344464, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene nuclear receptor subfamily 1, group H, member 4 Neighboring gene Annexin A7, pseudogene 2 Neighboring gene solute carrier family 17 member 8 Neighboring gene uncharacterized LOC134479856 Neighboring gene uncharacterized LOC134479656

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. 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
    2. Sequential Elution Interactome Analysis of the Mind Bomb 1 Ubiquitin Ligase Reveals a Novel Role in Dendritic Spine Outgrowth. Mertz J, et al. Mol Cell Proteomics, 2015 Jul. PMID 25931508, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein kinase activity 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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in clathrin-dependent endocytosis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endosome to lysosome transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of negative regulation of canonical Wnt signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in pyramidal neuron development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in receptor internalization ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    SCY1-like protein 2
    Names
    SCY1-like 2
    SCY1-like, kinase-like 2

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001191780.1 → NP_001178709.1  SCY1-like protein 2 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A6IFR6, D4A1Y0
      Related
      ENSRNOP00000002638.5, ENSRNOT00000002638.9
      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]

    2. NM_001434548.1 → NP_001421477.1  SCY1-like protein 2 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A6IFR6

    3. NM_001434550.1 → NP_001421479.1  SCY1-like protein 2 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/TrEMBL
      A0A8I6AFM7, A6IFR6

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086025.1 Reference GRCr8

      Range
      25951734..26004663 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006241242.5 → XP_006241304.1  SCY1-like protein 2 isoform X2

      Conserved Domains (4) summary
      smart00220
      Location:32 → 327
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      pfam08430
      Location:745 → 877
      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. XM_006241241.5 → XP_006241303.1  SCY1-like protein 2 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JVC2, A6IFR6
      Related
      ENSRNOP00000069426.1, ENSRNOT00000082016.3
      Conserved Domains (4) summary
      smart00220
      Location:32 → 327
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      pfam08430
      Location:746 → 878
      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]

    3. XM_017594827.3 → XP_017450316.1  SCY1-like protein 2 isoform X3

      Related
      ENSRNOP00000091677.2, ENSRNOT00000119175.2

    4. XM_063263439.1 → XP_063119509.1  SCY1-like protein 2 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JVC2, A6IFR6
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

    Other Literature Sources
    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools