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    Crocc ciliary rootlet coiled-coil, rootletin [ Rattus norvegicus (Norway rat) ]

    Gene ID: 313663, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Croccprovided by RGD
    Official Full Name
    ciliary rootlet coiled-coil, rootletinprovided by RGD
    Primary source
    RGD:1305364
    See related
    EnsemblRapid:ENSRNOG00000008334 AllianceGenome:RGD:1305364
    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 enable actin binding activity; kinesin binding activity; and structural molecule activity. Predicted to be a structural constituent of cytoskeleton. Predicted to be involved in several processes, including centriole-centriole cohesion; positive regulation of cilium assembly; and positive regulation of protein localization to cilium. Predicted to act upstream of or within several processes, including ciliary basal body organization; epithelial structure maintenance; and photoreceptor cell maintenance. Predicted to be located in several cellular components, including cytoskeleton; photoreceptor inner segment; and subapical part of cell. Predicted to be active in centriole and centrosome. Orthologous to human CROCC (ciliary rootlet coiled-coil, rootletin). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 80.2), Adrenal (RPKM 18.7) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Crocc in Genome Data Viewer
    Location:
    5q36
    Exon count:
    40
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (158603979..158646728, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (153320962..153363734, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (159540453..159583194, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene succinate dehydrogenase complex iron sulfur subunit B Neighboring gene ATPase cation transporting 13A2 Neighboring gene microfibril associated protein 2 Neighboring gene uncharacterized LOC120103023 Neighboring gene NECAP endocytosis associated 2 Neighboring gene migration and invasion enhancer 1, 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. Rootletin forms centriole-associated filaments and functions in centrosome cohesion. Bahe S, et al. J Cell Biol, 2005 Oct 10. PMID 16203858, Free PMC Article
    2. The ciliary rootlet maintains long-term stability of sensory cilia. Yang J, et al. Mol Cell Biol, 2005 May. PMID 15870283, Free PMC Article
    3. Rootletin interacts with C-Nap1 and may function as a physical linker between the pair of centrioles/basal bodies in cells. Yang J, et al. Mol Biol Cell, 2006 Feb. PMID 16339073, Free PMC Article
    4. Rootletin, a novel coiled-coil protein, is a structural component of the ciliary rootlet. Yang J, et al. J Cell Biol, 2002 Nov 11. PMID 12427867, Free PMC Article
    5. Three-dimensional architecture of the rod sensory cilium and its disruption in retinal neurodegeneration. Gilliam JC, et al. Cell, 2012 Nov 21. PMID 23178122, Free PMC Article

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables actin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables kinesin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables structural constituent of cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables structural molecule activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within cellular homeostasis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in centriole-centriole cohesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in centrosome cycle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in centrosome cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within ciliary basal body organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within epithelial structure maintenance ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within establishment of localization in cell ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within establishment of organelle localization ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within photoreceptor cell maintenance ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cilium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of protein localization to cilium ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in 9+2 motile cilium ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in actin cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in actin cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in centriole IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in centriole ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in centrosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in ciliary rootlet ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in photoreceptor inner segment ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in subapical part of cell ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    rootletin

    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_001415935.1 → NP_001402864.1  rootletin

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A0A8I5ZM97, F1M6Q2
      Related
      ENSRNOP00000052694.3, ENSRNOT00000055839.6

    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_086023.1 Reference GRCr8

      Range
      158603979..158646728 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063287810.1 → XP_063143880.1  rootletin isoform X6

      UniProtKB/TrEMBL
      A0A8I5ZN13

    2. XM_063287807.1 → XP_063143877.1  rootletin isoform X4

      UniProtKB/TrEMBL
      A0A8I5ZM97

    3. XM_063287809.1 → XP_063143879.1  rootletin isoform X5

      UniProtKB/TrEMBL
      A0A8I5ZN13
      Related
      ENSRNOP00000079103.2, ENSRNOT00000107095.2

    4. XM_063287806.1 → XP_063143876.1  rootletin isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZM97, F1M6Q2

    5. XM_063287805.1 → XP_063143875.1  rootletin isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZM97

    6. XM_063287811.1 → XP_063143881.1  rootletin isoform X7

      UniProtKB/TrEMBL
      A0A8I5ZM97

    7. XM_039110073.2 → XP_038966001.1  rootletin isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZM97
      Conserved Domains (3) summary
      COG1196
      Location:1093 → 1882
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam15921
      Location:55 → 660
      CCDC158; Coiled-coil domain-containing protein 158
      pfam15035
      Location:158 → 335
      Rootletin; Ciliary rootlet component, centrosome cohesion

    8. XM_063287812.1 → XP_063143882.1  rootletin isoform X8

      UniProtKB/TrEMBL
      D4AD05

    9. XM_017593415.3 → XP_017448904.1  rootletin isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZM97
      Related
      ENSRNOP00000079248.2, ENSRNOT00000106944.2
      Conserved Domains (3) summary
      COG1196
      Location:1093 → 1882
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam15921
      Location:55 → 660
      CCDC158; Coiled-coil domain-containing protein 158
      pfam15035
      Location:158 → 335
      Rootletin; Ciliary rootlet component, centrosome cohesion

    10. XM_063287813.1 → XP_063143883.1  rootletin isoform X9

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001107990.2: Suppressed sequence

      Description
      NM_001107990.2: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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