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    Sdk1 sidekick cell adhesion molecule 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 304297, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Sdk1provided by RGD
    Official Full Name
    sidekick cell adhesion molecule 1provided by RGD
    Primary source
    RGD:1560686
    See related
    EnsemblRapid:ENSRNOG00000001103 AllianceGenome:RGD:1560686
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1560686
    Summary
    Predicted to be involved in homophilic cell adhesion via plasma membrane adhesion molecules and synapse assembly. Predicted to act upstream of or within behavioral response to cocaine and regulation of dendritic spine development. Predicted to be located in membrane. Predicted to be active in synapse. Orthologous to human SDK1 (sidekick cell adhesion molecule 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 108.4), Kidney (RPKM 27.3) and 7 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sdk1 in Genome Data Viewer
    Location:
    12q11
    Exon count:
    47
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (17491430..18477914, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (12378074..13363934, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (14445798..15443442, complement)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120095892 Neighboring gene forkhead box K1 Neighboring gene ubiquitin-conjugating enzyme E2C, pseudogene 2 Neighboring gene uncharacterized LOC134481157 Neighboring gene U6 spliceosomal RNA Neighboring gene glyceraldehyde-3-phosphate dehydrogenase-like Neighboring gene uncharacterized LOC120095893 Neighboring gene nucleolar pre-rRNA processing protein NIP7, pseudogene 9

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Essential role of poly(ADP-ribosyl)ation in cocaine action. Scobie KN, et al. Proc Natl Acad Sci U S A, 2014 Feb 4. PMID 24449909, Free PMC Article
    2. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. Prunotto M, et al. J Proteomics, 2013 Apr 26. PMID 23376485

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within behavioral response to cocaine ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in homophilic cell adhesion via plasma membrane adhesion molecules IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of dendritic spine development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in synapse assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in synapse IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    protein sidekick-1

    NCBI Reference Sequences (RefSeq)

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    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_086030.1 Reference GRCr8

      Range
      17491430..18477914 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063271861.1 → XP_063127931.1  protein sidekick-1 isoform X2

      Related
      ENSRNOP00000109822.1, ENSRNOT00000136830.1

    2. XM_039089863.2 → XP_038945791.1  protein sidekick-1 isoform X1

      UniProtKB/TrEMBL
      A0A8I6A427
      Related
      ENSRNOP00000086581.1, ENSRNOT00000089775.3
      Conserved Domains (7) summary
      PHA03307
      Location:38 → 162
      PHA03307; transcriptional regulator ICP4; Provisional
      cd00063
      Location:1799 → 1892
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00041
      Location:765 → 850
      fn3; Fibronectin type III domain
      pfam07679
      Location:575 → 665
      I-set; Immunoglobulin I-set domain
      pfam13927
      Location:388 → 460
      Ig_3; Immunoglobulin domain
      cd00096
      Location:583 → 586
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:481 → 570
      Ig; Immunoglobulin domain

    3. XM_039089864.2 → XP_038945792.1  protein sidekick-1 isoform X3

      Related
      ENSRNOP00000112178.1, ENSRNOT00000169334.1
      Conserved Domains (6) summary
      cd00063
      Location:1414 → 1507
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00041
      Location:380 → 465
      fn3; Fibronectin type III domain
      pfam07679
      Location:190 → 280
      I-set; Immunoglobulin I-set domain
      pfam13927
      Location:3 → 75
      Ig_3; Immunoglobulin domain
      cd00096
      Location:198 → 201
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:96 → 185
      Ig; Immunoglobulin domain

    4. XM_063271862.1 → XP_063127932.1  protein sidekick-1 isoform X3

    Nucleotide Protein Strain
    Heading Accession and Version

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