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    Specc1l sperm antigen with calponin homology and coiled-coil domains 1-like [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361828, updated on 2-Nov-2024

    Summary

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    Symbol
    Specc1lprovided by RGD
    Full Name
    sperm antigen with calponin homology and coiled-coil domains 1-likeprovided by RGD
    Primary source
    RGD:1309570
    See related
    EnsemblRapid:ENSRNOG00000001303 AllianceGenome:RGD:1309570
    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
    Cytsa; RGD1309570
    Summary
    Predicted to enable beta-catenin binding activity. Predicted to be involved in actin cytoskeleton organization. Predicted to act upstream of or within several processes, including anterior neural tube closure; negative regulation of protein depolymerization; and positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction. Predicted to be located in cell-cell junction; cytoplasm; and cytoskeleton. Predicted to be part of filamentous actin. Predicted to be active in microtubule organizing center. Human ortholog(s) of this gene implicated in Teebi hypertelorism syndrome 1 and oblique facial clefting 1. Orthologous to human SPECC1L (sperm antigen with calponin homology and coiled-coil domains 1 like). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Lung (RPKM 344.4), Spleen (RPKM 131.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Specc1l in Genome Data Viewer
    Location:
    20p12
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (13337399..13443080, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (13337983..13443665, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (14287470..14393879, complement)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134483785 Neighboring gene uncharacterized LOC120098899 Neighboring gene adenosine A2a receptor Neighboring gene uncharacterized LOC120098869 Neighboring gene ATP synthase membrane subunit f, pseudogene 5 Neighboring gene BCR activator of RhoGEF and GTPase Neighboring gene RAB36, member RAS oncogene family

    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 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. Deficiency of the cytoskeletal protein SPECC1L leads to oblique facial clefting. Saadi I, et al. Am J Hum Genet, 2011 Jul 15. PMID 21703590, Free PMC Article
    2. SPECC1L deficiency results in increased adherens junction stability and reduced cranial neural crest cell delamination. Wilson NR, et al. Sci Rep, 2016 Jan 20. PMID 26787558, Free PMC Article
    3. Physiological Tau Interactome in Brain and Its Link to Tauopathies. Sinsky J, et al. J Proteome Res, 2020 Jun 5. PMID 32357304
    4. RNF207 exacerbates pathological cardiac hypertrophy via post-translational modification of TAB1. Yuan L, et al. Cardiovasc Res, 2023 Mar 17. PMID 35352799
    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

    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 beta-catenin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in actin cytoskeleton organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within actin cytoskeleton organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within adherens junction organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within anterior neural tube closure ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within cell adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within cell migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of actin filament depolymerization ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of microtubule depolymerization ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neural crest cell delamination ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in actin cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cell-cell junction ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of filamentous actin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of filamentous actin ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in gap junction IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in microtubule cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in microtubule organizing center IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in microtubule organizing center ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in spindle IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    cytospin-A
    Names
    28S ribosomal protein S7, mitochondrial-like
    SPECC1-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_001039455.2 → NP_001034544.1  cytospin-A

      See identical proteins and their annotated locations for NP_001034544.1

      Status: VALIDATED

      Source sequence(s)
      AY884296
      UniProtKB/Swiss-Prot
      Q2KN99
      UniProtKB/TrEMBL
      A0A8I5ZSC5, A6JKL5
      Related
      ENSRNOP00000001764.4, ENSRNOT00000001764.7
      Conserved Domains (3) summary
      cd00014
      Location:1016 → 1116
      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 ...
      cl19219
      Location:626 → 703
      DUF342; Protein of unknown function (DUF342)
      cl21494
      Location:852 → 969
      Abhydrolase; alpha/beta hydrolases

    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_086038.1 Reference GRCr8

      Range
      13337399..13443080 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063279246.1 → XP_063135316.1  cytospin-A isoform X1

    2. XM_063279247.1 → XP_063135317.1  cytospin-A isoform X1

    3. XM_006256339.5 → XP_006256401.1  cytospin-A isoform X2

      See identical proteins and their annotated locations for XP_006256401.1

      UniProtKB/Swiss-Prot
      Q2KN99
      UniProtKB/TrEMBL
      A0A8I5ZSC5, A6JKL5
      Conserved Domains (3) summary
      cd00014
      Location:1016 → 1116
      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 ...
      cl19219
      Location:626 → 703
      DUF342; Protein of unknown function (DUF342)
      cl21494
      Location:852 → 969
      Abhydrolase; alpha/beta hydrolases
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q2KN99.1 GenPept UniProtKB/Swiss-Prot:Q2KN99

    Gene LinkOut

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

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