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    Synpo2l synaptopodin 2-like [ Rattus norvegicus (Norway rat) ]

    Gene ID: 305675, updated on 4-Apr-2024

    Summary

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    Official Symbol
    Synpo2lprovided by RGD
    Official Full Name
    synaptopodin 2-likeprovided by RGD
    Primary source
    RGD:1565434
    See related
    Ensembl:ENSRNOG00000008949 AllianceGenome:RGD:1565434
    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
    RGD1565434
    Summary
    Predicted to enable actin binding activity. Predicted to be involved in several processes, including positive regulation of Rho protein signal transduction; positive regulation of stress fiber assembly; and sarcomere organization. Predicted to be located in cell junction; cytosol; and nuclear speck. Predicted to be active in Z disc; actin cytoskeleton; and nucleus. Orthologous to human SYNPO2L (synaptopodin 2 like). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Muscle (RPKM 261.5) and Heart (RPKM 175.2) See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    15p16
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (3681224..3690673)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (3631974..3641429)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (4064706..4074151)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA51 Neighboring gene small nucleolar RNA SNORA51 Neighboring gene myozenin 1 Neighboring gene ubiquitin specific peptidase 54 Neighboring gene nucleolin, pseudogene 1

    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. Z-disc protein CHAPb induces cardiomyopathy and contractile dysfunction in the postnatal heart. van Eldik W, et al. PLoS One, 2017. PMID 29206857, Free PMC Article
    2. CHAP is a newly identified Z-disc protein essential for heart and skeletal muscle function. Beqqali A, et al. J Cell Sci, 2010 Apr 1. PMID 20215401
    3. 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

    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

    Function Evidence Code Pubs
    enables actin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in heart morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of Rho protein signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of actin filament bundle assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of stress fiber assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in sarcomere organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in Z disc IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Z disc ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in actin cytoskeleton IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    synaptopodin 2-like protein

    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_001305138.3 → NP_001292067.1  synaptopodin 2-like protein isoform 1

      See identical proteins and their annotated locations for NP_001292067.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      JAXUCZ010000015
      UniProtKB/TrEMBL
      A6KKP4, D3ZZ68
      Related
      ENSRNOP00000011956.4, ENSRNOT00000011956.5
      Conserved Domains (1) summary
      cd00992
      Location:6 → 85
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

    2. NM_001305139.3 → NP_001292068.1  synaptopodin 2-like protein isoform 2

      See identical proteins and their annotated locations for NP_001292068.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks part of the 5' coding region, contains an alternate 5'-terminal exon, and uses an alternate start codon, compared to variant 1. The encoded isoform (2) has a shorter and distinct N-terminus.
      Source sequence(s)
      JAXUCZ010000015
      UniProtKB/TrEMBL
      A0A8I5ZSY9
      Related
      ENSRNOP00000081435.1, ENSRNOT00000118985.1
      Conserved Domains (1) summary
      PHA03247
      Location:194 → 391
      PHA03247; large tegument protein UL36; Provisional

    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_086033.1 Reference GRCr8

      Range
      3681224..3690673
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039093230.2 → XP_038949158.1  synaptopodin 2-like protein isoform X1

      UniProtKB/TrEMBL
      A6KKP5
      Conserved Domains (1) summary
      PHA03247
      Location:127 → 324
      PHA03247; large tegument protein UL36; Provisional

    2. XM_039093229.2 → XP_038949157.1  synaptopodin 2-like protein isoform X1

      UniProtKB/TrEMBL
      A6KKP5
      Conserved Domains (1) summary
      PHA03247
      Location:127 → 324
      PHA03247; large tegument protein UL36; Provisional
    Nucleotide Protein Strain
    Heading Accession and Version

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