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    rtca RNA 3'-terminal phosphate cyclase [ Danio rerio (zebrafish) ]

    Gene ID: 321129, updated on 27-Mar-2024

    Summary

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    Official Symbol
    rtcaprovided by ZNC
    Official Full Name
    RNA 3'-terminal phosphate cyclaseprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-9687
    See related
    Ensembl:ENSDARG00000002215 AllianceGenome:ZFIN:ZDB-GENE-030131-9687
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    cb158; rtcd1; sb:cb158; zgc:56339; wu:fc62c03
    Summary
    Predicted to enable RNA-3'-phosphate cyclase activity. Predicted to act upstream of or within RNA processing. Predicted to be active in nucleus. Is expressed in several structures, including axis; lateral plate mesoderm; nervous system; neural plate; and primordial germ cell. Orthologous to human RTCA (RNA 3'-terminal phosphate cyclase). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See rtca in Genome Data Viewer
    Location:
    chromosome: 22
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (16282144..16291066, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (16255874..16264795, complement)

    Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene G protein-coupled receptor 88 Neighboring gene cell division cycle 14Ab Neighboring gene tctex1 domain-containing protein 1-like Neighboring gene dihydrolipoamide branched chain transacylase E2 Neighboring gene leucine rich repeat containing 39

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. A single cell transcriptome atlas of the developing zebrafish hindbrain. Tambalo M, et al. Development, 2020 Mar 16. PMID 32094115, Free PMC Article
    2. Hematopoietic gene expression profile in zebrafish kidney marrow. Song HD, et al. Proc Natl Acad Sci U S A, 2004 Nov 16. PMID 15520368, Free PMC Article
    3. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article
    4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    5. 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

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA-3'-phosphate cyclase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA-3'-phosphate cyclase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables catalytic activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    RNA 3'-terminal phosphate cyclase
    Names
    RNA terminal phosphate cyclase domain 1
    RTC domain containing 1
    NP_955830.1

    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_199536.2 → NP_955830.1  RNA 3'-terminal phosphate cyclase

      See identical proteins and their annotated locations for NP_955830.1

      Status: PROVISIONAL

      Source sequence(s)
      AY398409
      UniProtKB/TrEMBL
      F6NVV3, Q6TGU7, Q7ZUX5
      Related
      ENSDARP00000023892.9, ENSDART00000021666.10
      Conserved Domains (2) summary
      cd00874
      Location:8 → 339
      RNA_Cyclase_Class_II; RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine residue is found in ...
      pfam01137
      Location:12 → 337
      RTC; RNA 3'-terminal phosphate cyclase

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007133.7 Reference GRCz11 Primary Assembly

      Range
      16282144..16291066 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_002456412.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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