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    Crocc ciliary rootlet coiled-coil, rootletin [ Mus musculus (house mouse) ]

    Gene ID: 230872, updated on 27-Nov-2024

    Summary

    Official Symbol
    Croccprovided by MGI
    Official Full Name
    ciliary rootlet coiled-coil, rootletinprovided by MGI
    Primary source
    MGI:MGI:3529431
    See related
    Ensembl:ENSMUSG00000040860 AllianceGenome:MGI:3529431
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Summary
    Enables actin binding activity; kinesin binding activity; and structural molecule activity. A structural constituent of cytoskeleton. Acts upstream of or within several processes, including ciliary basal body organization; epithelial structure maintenance; and photoreceptor cell maintenance. Located in several cellular components, including cytoskeleton; photoreceptor inner segment; and subapical part of cell. Is expressed in brain; metanephros; and retina layer. Orthologous to human CROCC (ciliary rootlet coiled-coil, rootletin). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in ovary adult (RPKM 11.7), cortex adult (RPKM 10.1) and 24 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Crocc in Genome Data Viewer
    Location:
    4 D3; 4 73.31 cM
    Exon count:
    40
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (140743948..140787927, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (141016637..141060615, complement)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene ATPase type 13A2 Neighboring gene microfibrillar-associated protein 2 Neighboring gene STARR-seq mESC enhancer starr_11885 Neighboring gene STARR-positive B cell enhancer ABC_E4695 Neighboring gene STARR-positive B cell enhancer ABC_E10272 Neighboring gene NECAP endocytosis associated 2 Neighboring gene STARR-positive B cell enhancer ABC_E3532 Neighboring gene ribosomal protein S2 pseudogene

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 
    • Targeted (1)  1 citation

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Clone Names

    • KIAA0445

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables actin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables kinesin binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables structural constituent of cytoskeleton IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables structural molecule activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within cellular homeostasis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in centriole-centriole cohesion IEA
    Inferred from Electronic Annotation
    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
     
    involved_in centrosome cycle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within ciliary basal body organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within epithelial structure maintenance IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within establishment of localization in cell IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within establishment of organelle localization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within photoreceptor cell maintenance IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of cilium assembly IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in centriole ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    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 centrosome ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in ciliary rootlet IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in ciliary rootlet IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in glial cell projection IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in photoreceptor inner segment IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    rootletin
    Names
    ciliary rootlet coiled-coil protein

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001145958.2NP_001139430.1  rootletin isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus and lacks an alternate internal segment compared to isoform 1.
      Source sequence(s)
      AL645625
      Consensus CDS
      CCDS51346.1
      UniProtKB/Swiss-Prot
      Q8CJ40
      Related
      ENSMUSP00000095425.3, ENSMUST00000097816.9
      Conserved Domains (4) summary
      COG1196
      Location:9271717
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR02168
      Location:5901262
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam15035
      Location:34171
      Rootletin; Ciliary rootlet component, centrosome cohesion
      cl19219
      Location:820888
      DUF342; Protein of unknown function (DUF342)
    2. NM_172122.3NP_742120.2  rootletin isoform 1

      See identical proteins and their annotated locations for NP_742120.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AL645625
      Consensus CDS
      CCDS18861.1
      UniProtKB/Swiss-Prot
      A2AA81, Q7TQL2, Q80U01, Q8CJ40, Q8R0B9
      Related
      ENSMUSP00000099549.4, ENSMUST00000102491.10
      Conserved Domains (4) summary
      TIGR02168
      Location:89931
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam01576
      Location:7031802
      Myosin_tail_1; Myosin tail
      pfam15035
      Location:158335
      Rootletin; Ciliary rootlet component, centrosome cohesion
      cl19219
      Location:9841052
      DUF342; Protein of unknown function (DUF342)

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000070.7 Reference GRCm39 C57BL/6J

      Range
      140743948..140787927 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006538800.5XP_006538863.1  rootletin isoform X1

      See identical proteins and their annotated locations for XP_006538863.1

      Conserved Domains (3) summary
      COG1196
      Location:10171807
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR02168
      Location:6801352
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam15035
      Location:84261
      Rootletin; Ciliary rootlet component, centrosome cohesion
    2. XM_006538801.3XP_006538864.1  rootletin isoform X1

      See identical proteins and their annotated locations for XP_006538864.1

      Conserved Domains (3) summary
      COG1196
      Location:10171807
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR02168
      Location:6801352
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam15035
      Location:84261
      Rootletin; Ciliary rootlet component, centrosome cohesion
    3. XM_006538802.4XP_006538865.1  rootletin isoform X2

      Conserved Domains (3) summary
      COG1196
      Location:10011791
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR02168
      Location:6641336
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam15035
      Location:117245
      Rootletin; Ciliary rootlet component, centrosome cohesion
    4. XM_036164085.1XP_036019978.1  rootletin isoform X3

      Conserved Domains (4) summary
      PRK09039
      Location:12861433
      PRK09039; peptidoglycan -binding protein
      TIGR02168
      Location:5931312
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam15921
      Location:88641
      CCDC158; Coiled-coil domain-containing protein 158
      pfam15035
      Location:158335
      Rootletin; Ciliary rootlet component, centrosome cohesion

    RNA

    1. XR_004941878.1 RNA Sequence

    2. XR_881420.4 RNA Sequence