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    Odf1 outer dense fiber of sperm tails 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 24610, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Odf1provided by RGD
    Official Full Name
    outer dense fiber of sperm tails 1provided by RGD
    Primary source
    RGD:3228
    See related
    EnsemblRapid:ENSRNOG00000006578 AllianceGenome:RGD:3228
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Enables protein domain specific binding activity. Predicted to be involved in cell differentiation and spermatogenesis. Predicted to be located in manchette and sperm flagellum. Predicted to be active in outer dense fiber. Orthologous to human ODF1 (outer dense fiber of sperm tails 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Restricted expression toward (RPKM 3185.7) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Odf1 in Genome Data Viewer
    Location:
    7q22
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (71262270..71274621)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (69377427..69389662)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (77066580..77074712)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene poly(A) polymerase beta, pseudogene 1 Neighboring gene uncharacterized LOC120093637 Neighboring gene ribosomal protein S29, pseudogene 17 Neighboring gene uncharacterized LOC103692890 Neighboring gene uncharacterized LOC102550353 Neighboring gene uncharacterized LOC134479897 Neighboring gene KLF transcription factor 10

    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. Identity of two rat testis cDNAs. Hoyer-Fender S. Dev Biol, 1993 Jun. PMID 8500659
    2. Structure and chromosomal assignment of a gene encoding the major protein of rat sperm outer dense fibres. Burfeind P, et al. Eur J Biochem, 1993 Sep 1. PMID 8375388
    3. Molecular cloning and developmental expression of an mRNA encoding the 27 kDa outer dense fiber protein of rat spermatozoa. Morales CR, et al. Mol Reprod Dev, 1994 Feb. PMID 8179907
    4. Sequence and developmental expression of a mRNA encoding a putative protein of rat sperm outer dense fibers. Burfeind P, et al. Dev Biol, 1991 Nov. PMID 1936558
    5. A new rat gene RT7 is specifically expressed during spermatogenesis. van der Hoorn FA, et al. Dev Biol, 1990 Nov. PMID 1699827

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. OIP1 binds to evolutionarily conserved Cys-Gly-Pro repeats in C-terminus of ODF1.
      Title: Novel RING finger protein OIP1 binds to conserved amino acid repeats in sperm tail protein ODF1.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables protein domain specific binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in spermatogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in centrosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in manchette ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in manchette ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in motile cilium IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in outer dense fiber IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in outer dense fiber ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in outer dense fiber ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in polymeric cytoskeletal fiber IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in sperm flagellum ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in sperm flagellum ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    outer dense fiber protein 1
    Names
    RTS 5/1
    Sperm outer dense fiber major protein 1

    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_024126.5 → NP_077040.2  outer dense fiber protein 1

      See identical proteins and their annotated locations for NP_077040.2

      Status: PROVISIONAL

      Source sequence(s)
      BC078708
      UniProtKB/Swiss-Prot
      P21769, Q62652, Q63390, Q63534, Q63535
      UniProtKB/TrEMBL
      A6HR54
      Conserved Domains (1) summary
      cd06482
      Location:102 → 188
      ACD_HspB10; Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB10, also known as sperm outer dense fiber protein (ODFP), and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell ...

    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_086025.1 Reference GRCr8

      Range
      71262270..71274621
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039078408.2 → XP_038934336.1  outer dense fiber protein 1 isoform X3

      UniProtKB/TrEMBL
      A6HR53
      Conserved Domains (1) summary
      cd06482
      Location:26 → 112
      ACD_HspB10; Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB10, also known as sperm outer dense fiber protein (ODFP), and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell ...

    2. XM_017594659.3 → XP_017450148.1  outer dense fiber protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A8L2UI24
      Related
      ENSRNOP00000008700.5, ENSRNOT00000008700.7

    3. XM_063262993.1 → XP_063119063.1  outer dense fiber protein 1 isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P21769.2 GenPept UniProtKB/Swiss-Prot:P21769

    Gene LinkOut

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