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

Gene ID: 321129, updated on 12-Sep-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
RS_2024_08 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (16282144..16291033, 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 cell division cycle 14Ab Neighboring gene U5 spliceosomal RNA Neighboring gene dynein light chain Tctex-type 5 Neighboring gene dihydrolipoamide branched chain transacylase E2

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 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: GCF_000002035.6-RS_2024_08

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..16291033 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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