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    Cchcr1 coiled-coil alpha-helical rod protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 406196, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Cchcr1provided by RGD
    Official Full Name
    coiled-coil alpha-helical rod protein 1provided by RGD
    Primary source
    RGD:1302992
    See related
    EnsemblRapid:ENSRNOG00000050233 AllianceGenome:RGD:1302992
    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
    Hcr; C6orf18
    Summary
    Predicted to enable identical protein binding activity. Predicted to be involved in protein export from nucleus. Predicted to be located in cytosol. Predicted to be active in centriole. Orthologous to human CCHCR1 (coiled-coil alpha-helical rod protein 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 407.9), Thymus (RPKM 90.7) and 5 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cchcr1 in Genome Data Viewer
    Location:
    20p12
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (3210383..3223187, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (3205675..3218437, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (3730968..3745721, complement)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein L22, pseudogene 1 Neighboring gene psoriasis susceptibility 1 candidate 2 Neighboring gene transcription factor 19 Neighboring gene POU class 5 homeobox 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. CEP162 is an axoneme-recognition protein promoting ciliary transition zone assembly at the cilia base. Wang WJ, et al. Nat Cell Biol, 2013 Jun. PMID 23644468, Free PMC Article
    2. RNA polymerase II subunit 3 is retained in the cytoplasm by its interaction with HCR, the psoriasis vulgaris candidate gene product. Corbi N, et al. J Cell Sci, 2005 Sep 15. PMID 16141233
    3. A proteome-scale map of the human interactome network. Rolland T, et al. Cell, 2014 Nov 20. PMID 25416956, Free PMC Article
    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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein export from nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within protein export from nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in centriole IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in centriole ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm 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 nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    coiled-coil alpha-helical rod protein 1
    Names
    HCR (a-helix coiled-coil rod homolog)

    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_001002822.2 → NP_001002822.2  coiled-coil alpha-helical rod protein 1

      Status: VALIDATED

      Source sequence(s)
      BC105619, CV126837
      UniProtKB/TrEMBL
      A0A0G2K6P2, A6KTB3
      Related
      ENSRNOP00000098218.2, ENSRNOT00000120577.2
      Conserved Domains (2) summary
      pfam07111
      Location:110 → 853
      HCR; Alpha helical coiled-coil rod protein (HCR)
      cl19219
      Location:305 → 384
      DUF342; Protein of unknown function (DUF342)

    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
      3210383..3223187 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063279375.1 → XP_063135445.1  coiled-coil alpha-helical rod protein 1 isoform X10

      UniProtKB/TrEMBL
      Q6MG25

    2. XM_063279370.1 → XP_063135440.1  coiled-coil alpha-helical rod protein 1 isoform X8

      UniProtKB/TrEMBL
      Q6MG25

    3. XM_039098944.1 → XP_038954872.1  coiled-coil alpha-helical rod protein 1 isoform X7

      UniProtKB/TrEMBL
      Q0D2L7, Q6MG25
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 770
      HCR; Alpha helical coiled-coil rod protein (HCR)

    4. XM_039098943.2 → XP_038954871.1  coiled-coil alpha-helical rod protein 1 isoform X7

      UniProtKB/TrEMBL
      Q0D2L7, Q6MG25
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 770
      HCR; Alpha helical coiled-coil rod protein (HCR)

    5. XM_039098941.2 → XP_038954869.1  coiled-coil alpha-helical rod protein 1 isoform X7

      UniProtKB/TrEMBL
      Q0D2L7, Q6MG25
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 770
      HCR; Alpha helical coiled-coil rod protein (HCR)

    6. XM_039098946.2 → XP_038954874.1  coiled-coil alpha-helical rod protein 1 isoform X7

      UniProtKB/TrEMBL
      Q0D2L7, Q6MG25
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 770
      HCR; Alpha helical coiled-coil rod protein (HCR)

    7. XM_063279373.1 → XP_063135443.1  coiled-coil alpha-helical rod protein 1 isoform X9

      UniProtKB/TrEMBL
      A6KTB4, Q6MG25

    8. XM_039098942.2 → XP_038954870.1  coiled-coil alpha-helical rod protein 1 isoform X7

      UniProtKB/TrEMBL
      Q0D2L7, Q6MG25
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 770
      HCR; Alpha helical coiled-coil rod protein (HCR)

    9. XM_063279372.1 → XP_063135442.1  coiled-coil alpha-helical rod protein 1 isoform X9

      UniProtKB/TrEMBL
      A6KTB4, Q6MG25

    10. XM_063279366.1 → XP_063135436.1  coiled-coil alpha-helical rod protein 1 isoform X4

      UniProtKB/TrEMBL
      A6KTB3

    11. XM_039098938.2 → XP_038954866.1  coiled-coil alpha-helical rod protein 1 isoform X3

      UniProtKB/TrEMBL
      A6KTB3
      Conserved Domains (1) summary
      pfam07111
      Location:110 → 833
      HCR; Alpha helical coiled-coil rod protein (HCR)

    12. XM_039098939.2 → XP_038954867.1  coiled-coil alpha-helical rod protein 1 isoform X5

      UniProtKB/TrEMBL
      A6KTB3
      Related
      ENSRNOP00000098223.2, ENSRNOT00000120582.2
      Conserved Domains (1) summary
      pfam07111
      Location:110 → 803
      HCR; Alpha helical coiled-coil rod protein (HCR)

    13. XM_063279367.1 → XP_063135437.1  coiled-coil alpha-helical rod protein 1 isoform X6

    14. XM_039098937.2 → XP_038954865.1  coiled-coil alpha-helical rod protein 1 isoform X2

      UniProtKB/TrEMBL
      A6KTB3
      Conserved Domains (1) summary
      pfam07111
      Location:110 → 839
      HCR; Alpha helical coiled-coil rod protein (HCR)

    15. XM_039098936.2 → XP_038954864.1  coiled-coil alpha-helical rod protein 1 isoform X1

      UniProtKB/TrEMBL
      A6KTB3
      Conserved Domains (1) summary
      pfam07111
      Location:110 → 840
      HCR; Alpha helical coiled-coil rod protein (HCR)

    16. XM_063279371.1 → XP_063135441.1  coiled-coil alpha-helical rod protein 1 isoform X9

      UniProtKB/TrEMBL
      A6KTB4, Q6MG25

    17. XM_063279368.1 → XP_063135438.1  coiled-coil alpha-helical rod protein 1 isoform X7

      UniProtKB/TrEMBL
      Q0D2L7, Q6MG25

    18. XM_063279369.1 → XP_063135439.1  coiled-coil alpha-helical rod protein 1 isoform X7

      UniProtKB/TrEMBL
      Q0D2L7, Q6MG25

    19. XM_063279374.1 → XP_063135444.1  coiled-coil alpha-helical rod protein 1 isoform X10

      UniProtKB/TrEMBL
      Q6MG25

    20. XM_063279376.1 → XP_063135446.1  coiled-coil alpha-helical rod protein 1 isoform X11

      UniProtKB/TrEMBL
      Q6MG25

    21. XM_039098948.2 → XP_038954876.1  coiled-coil alpha-helical rod protein 1 isoform X12

      Conserved Domains (1) summary
      pfam07111
      Location:110 → 630
      HCR; Alpha helical coiled-coil rod protein (HCR)

    RNA

    1. XR_005497314.2 RNA Sequence

    2. XR_005497313.2 RNA Sequence

    3. XR_005497315.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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