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    Smtn smoothelin [ Rattus norvegicus (Norway rat) ]

    Gene ID: 289734, updated on 27-Nov-2024

    Summary

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    Symbol
    Smtnprovided by RGD
    Full Name
    smoothelinprovided by RGD
    Primary source
    RGD:1310216
    See related
    EnsemblRapid:ENSRNOG00000019451 AllianceGenome:RGD:1310216
    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
    Summary
    Predicted to be involved in actin cytoskeleton organization. Predicted to act upstream of or within negative regulation of systemic arterial blood pressure and positive regulation of cardiac muscle contraction. Predicted to be part of filamentous actin. Predicted to be active in microtubule organizing center. Orthologous to human SMTN (smoothelin). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Heart (RPKM 130.1), Uterus (RPKM 112.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Smtn in Genome Data Viewer
    Location:
    14q21
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (82622223..82644525, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (78398595..78420908, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (83755141..83776871, complement)

    Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene inositol polyphosphate-5-phosphatase J Neighboring gene selenoprotein M Neighboring gene prefoldin subunit 4-like Neighboring gene uncharacterized LOC108352784

    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. Smoothelin is an indicator of reversible phenotype modulation of smooth muscle cells in balloon-injured rat carotid arteries. Bär H, et al. Basic Res Cardiol, 2002 Jan. PMID 11998981
    2. Smoothelin-B deficiency results in reduced arterial contractility, hypertension, and cardiac hypertrophy in mice. Rensen SS, et al. Circulation, 2008 Aug 19. PMID 18678771
    3. p38α MAPK proximity assay reveals a regulatory mechanism of alternative splicing in cardiomyocytes. Dumont AA, et al. Biochim Biophys Acta Mol Cell Res, 2019 Dec. PMID 31505169
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Smoothelin is an indicator of reversible phenotype modulation of smooth muscle cells in balloon-injured rat carotid arteries.
      Title: Smoothelin is an indicator of reversible phenotype modulation of smooth muscle cells in balloon-injured rat carotid arteries.
    Submit: New GeneRIF Correction

    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 RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within negative regulation of systemic arterial blood pressure ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of cardiac muscle contraction ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    smoothelin

    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_001013049.2 → NP_001013067.2  smoothelin

      See identical proteins and their annotated locations for NP_001013067.2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000014
      UniProtKB/TrEMBL
      A0A8I6ASQ7, A6IKC3, D4ABA5
      Related
      ENSRNOP00000026481.2, ENSRNOT00000026481.5
      Conserved Domains (2) summary
      cd00014
      Location:808 → 908
      CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
      pfam12510
      Location:571 → 620
      Smoothelin; Smoothelin cytoskeleton protein

    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_086032.1 Reference GRCr8

      Range
      82622223..82644525 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017599120.3 → XP_017454609.1  smoothelin isoform X4

      UniProtKB/TrEMBL
      A0A8I6ASQ7

    2. XM_039091731.2 → XP_038947659.1  smoothelin isoform X5

      UniProtKB/TrEMBL
      A0A8I6ASQ7
      Conserved Domains (3) summary
      PHA03247
      Location:173 → 455
      PHA03247; large tegument protein UL36; Provisional
      pfam12510
      Location:573 → 620
      Smoothelin; Smoothelin cytoskeleton protein
      cd21258
      Location:729 → 839
      CH_SMTNA; calponin homology (CH) domain found in smoothelin-A and similar proteins

    3. XM_006251196.5 → XP_006251258.1  smoothelin isoform X2

      UniProtKB/TrEMBL
      A0A8I6ASQ7
      Conserved Domains (2) summary
      cd00014
      Location:807 → 911
      CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
      pfam12510
      Location:571 → 620
      Smoothelin; Smoothelin cytoskeleton protein

    4. XM_006251194.5 → XP_006251256.1  smoothelin isoform X1

      See identical proteins and their annotated locations for XP_006251256.1

      UniProtKB/TrEMBL
      A0A8I6AH70, A0A8I6ASQ7, A6IKC2
      Related
      ENSRNOP00000094180.1, ENSRNOT00000105093.2
      Conserved Domains (2) summary
      cd00014
      Location:808 → 912
      CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
      pfam12510
      Location:571 → 620
      Smoothelin; Smoothelin cytoskeleton protein

    5. XM_008770259.4 → XP_008768481.1  smoothelin isoform X8

      UniProtKB/TrEMBL
      A0A8I6ASQ7
      Conserved Domains (2) summary
      cd00014
      Location:839 → 943
      CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
      pfam12510
      Location:602 → 651
      Smoothelin; Smoothelin cytoskeleton protein

    6. XM_063272944.1 → XP_063129014.1  smoothelin isoform X6

      UniProtKB/TrEMBL
      A0A8I5ZNI1
      Related
      ENSRNOP00000079915.1, ENSRNOT00000118432.2

    7. XM_063272943.1 → XP_063129013.1  smoothelin isoform X3

      UniProtKB/TrEMBL
      A6IKC3, D4ABA5
      Related
      ENSRNOP00000097471.2, ENSRNOT00000095950.2

    8. XM_063272945.1 → XP_063129015.1  smoothelin isoform X7

    RNA

    1. XR_010057353.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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