U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Spef1 sperm flagellar 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 311429, updated on 5-Mar-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Spef1provided by RGD
    Official Full Name
    sperm flagellar 1provided by RGD
    Primary source
    RGD:1311267
    See related
    Ensembl:ENSRNOG00000021247 AllianceGenome:RGD:1311267
    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
    RGD1311267
    Summary
    Predicted to enable actin binding activity and microtubule binding activity. Predicted to be involved in several processes, including cilium movement; negative regulation of microtubule depolymerization; and plasma membrane bounded cell projection assembly. Predicted to be located in several cellular components, including basolateral plasma membrane; ciliary tip; and cytoskeleton. Predicted to be active in axoneme. Orthologous to human SPEF1 (sperm flagellar 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Heart (RPKM 45.2), Lung (RPKM 40.3) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Spef1 in Genome Data Viewer
    Location:
    3q36
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (138843679..138849762, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (118390659..118396842, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (123712907..123720787, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene heat shock protein family A (Hsp70) member 12B Neighboring gene adipose secreted signaling protein Neighboring gene centromere protein B Neighboring gene uncharacterized LOC134486156

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. CLAMP, a novel microtubule-associated protein with EB-type calponin homology. Dougherty GW, et al. Cell Motil Cytoskeleton, 2005 Nov. PMID 16206169
    2. Spef1, a conserved novel testis protein found in mouse sperm flagella. Chan SW, et al. Gene, 2005 Jul 4. PMID 15979255
    3. Sperm Flagellar 1 Binds Actin in Intestinal Epithelial Cells and Contributes to Formation of Filopodia and Lamellipodia. Tapia R, et al. Gastroenterology, 2019 Dec. PMID 31473225, 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

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC116270

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables actin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables microtubule binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables microtubule binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in axonemal central apparatus assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cilium movement ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in filopodium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in lamellipodium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in microtubule bundle formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of microtubule depolymerization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cytoskeleton organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in 9+2 motile cilium ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in apical plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in axonemal central apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in axoneme IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in basolateral plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in ciliary tip ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in filopodium ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in lamellipodium ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in microtubule ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in microvillus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in motile cilium ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    sperm flagellar protein 1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001039024.2 → NP_001034113.2  sperm flagellar protein 1

      See identical proteins and their annotated locations for NP_001034113.2

      Status: VALIDATED

      Source sequence(s)
      BC099127
      UniProtKB/TrEMBL
      A6HQC5
      Conserved Domains (1) summary
      pfam06294
      Location:14 → 104
      CH_2; CH-like domain in sperm protein

    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_086021.1 Reference GRCr8

      Range
      138843679..138849762 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039105010.2 → XP_038960938.1  sperm flagellar protein 1 isoform X2

      UniProtKB/TrEMBL
      Q4KLL8
      Conserved Domains (1) summary
      pfam06294
      Location:13 → 104
      CH_2; CH-like domain in sperm protein

    2. XM_006235033.5 → XP_006235095.1  sperm flagellar protein 1 isoform X1

      UniProtKB/TrEMBL
      G3V8V9
      Related
      ENSRNOP00000028861.3
      Conserved Domains (1) summary
      pfam06294
      Location:14 → 104
      CH_2; CH-like domain in sperm protein

    RNA

    1. XR_005501882.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools