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    Ift56 intraflagellar transport 56 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 500086, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ift56provided by RGD
    Official Full Name
    intraflagellar transport 56provided by RGD
    Primary source
    RGD:1561363
    See related
    EnsemblRapid:ENSRNOG00000027617 AllianceGenome:RGD:1561363
    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
    Ttc26
    Summary
    Predicted to enable intraciliary transport particle B binding activity. Predicted to be involved in cilium organization; protein localization to cilium; and smoothened signaling pathway. Predicted to act upstream of or within manchette assembly. Located in cilium. Orthologous to human IFT56 (intraflagellar transport 56). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 67.8), Kidney (RPKM 52.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ift56 in Genome Data Viewer
    Location:
    4q23
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (68057530..68115494)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (67090622..67154707)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (66090178..66147998)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene high-mobility group box 1, pseudogene 18 Neighboring gene ZC3HAV1 like Neighboring gene zinc finger CCCH-type containing, antiviral 1 Neighboring gene high mobility group protein B1 pseudogene Neighboring gene large ribosomal subunit protein uL14-like Neighboring gene ubinuclein 2

    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. Spermatogenesis revisited. V. Spermiogenesis in mice homozygous for two different male-sterile mutations (ps and hpy). Bryan JH. Cell Tissue Res, 1981. PMID 7317942
    2. A mutation in the mouse ttc26 gene leads to impaired hedgehog signaling. Swiderski RE, et al. PLoS Genet, 2014 Oct. PMID 25340710, Free PMC Article
    3. Knockdown of ttc26 disrupts ciliogenesis of the photoreceptor cells and the pronephros in zebrafish. Zhang Q, et al. Mol Biol Cell, 2012 Aug. PMID 22718903, Free PMC Article
    4. Spermatid perinuclear ribonucleic acid-binding protein binds microtubules in vitro and associates with abnormal manchettes in vivo in mice. Schumacher JM, et al. Biol Reprod, 1998 Jul. PMID 9674995
    5. IFT56 regulates vertebrate developmental patterning by maintaining IFTB complex integrity and ciliary microtubule architecture. Xin D, et al. Development, 2017 Apr 15. PMID 28264835, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables intraciliary transport particle B binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables intraciliary transport particle B binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in axoneme assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in axoneme assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in cilium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cilium assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in intraciliary anterograde transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in intraciliary transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in intraciliary transport ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in intraciliary transport involved in cilium assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within manchette assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to cilium ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to cilium ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in smoothened signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in smoothened signaling pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within spermatid development ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in ciliary basal body IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in ciliary basal body ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in ciliary base IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cilium IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cilium IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cilium ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of intraciliary transport particle B IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of intraciliary transport particle B ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of intraciliary transport particle B ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in neuron projection ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    intraflagellar transport protein 56
    Names
    TPR repeat protein 26
    tetratricopeptide repeat domain 26
    tetratricopeptide repeat protein 26

    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_001025045.2 → NP_001020216.1  intraflagellar transport protein 56

      See identical proteins and their annotated locations for NP_001020216.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/Swiss-Prot
      Q5U2N8
      UniProtKB/TrEMBL
      A0A8L2R4G6
      Related
      ENSRNOP00000034588.4, ENSRNOT00000031193.7
      Conserved Domains (2) summary
      sd00006
      Location:58 → 86
      TPR; TPR repeat [structural motif]
      pfam12895
      Location:35 → 113
      ANAPC3; Anaphase-promoting complex, cyclosome, subunit 3

    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_086022.1 Reference GRCr8

      Range
      68057530..68115494
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006236330.4 → XP_006236392.1  intraflagellar transport protein 56 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZP09, A0A8L2R4G6
      Related
      ENSRNOP00000080167.1, ENSRNOT00000108503.2
      Conserved Domains (2) summary
      TIGR02917
      Location:33 → 323
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00006
      Location:58 → 86
      TPR; TPR repeat [structural motif]

    RNA

    1. XR_010065692.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5U2N8.1 GenPept UniProtKB/Swiss-Prot:Q5U2N8

    Gene LinkOut

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

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