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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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