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Rtca RNA 3'-terminal phosphate cyclase [ Mus musculus (house mouse) ]

Gene ID: 66368, updated on 2-Nov-2024

Summary

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Official Symbol
Rtcaprovided by MGI
Official Full Name
RNA 3'-terminal phosphate cyclaseprovided by MGI
Primary source
MGI:MGI:1913618
See related
Ensembl:ENSMUSG00000000339 AllianceGenome:MGI:1913618
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
RPC; Rtcd1; 2310009A18Rik
Summary
Predicted to enable RNA-3'-phosphate cyclase activity. Involved in negative regulation of optical nerve axon regeneration. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in dorsal root ganglion; retina; and retina ganglion cell layer. Orthologous to human RTCA (RNA 3'-terminal phosphate cyclase). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in testis adult (RPKM 35.2), CNS E11.5 (RPKM 29.0) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Rtca in Genome Data Viewer
Location:
3 G1; 3 50.35 cM
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (116282612..116301852, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (116488963..116508203, complement)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 22361 Neighboring gene predicted gene, 26358 Neighboring gene STARR-positive B cell enhancer ABC_E656 Neighboring gene STARR-positive B cell enhancer ABC_E2680 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:116216204-116216387 Neighboring gene dihydrolipoamide branched chain transacylase E2 Neighboring gene ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast) pseudogene Neighboring gene splicing factor, arginine/serine-rich pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. The microtubule regulator ringer functions downstream from the RNA repair/splicing pathway to promote axon regeneration. Vargas EJM, et al. Genes Dev, 2020 Feb 1. PMID 31919191, Free PMC Article
  2. Regulation of axon regeneration by the RNA repair and splicing pathway. Song Y, et al. Nat Neurosci, 2015 Jun. PMID 25961792, Free PMC Article
  3. Identification of new ciliary signaling pathways in the brain and insights into neurological disorders. Loukil A, et al. bioRxiv, 2023 Dec 21. PMID 38187761, Free PMC Article
  4. Widespread and dynamic translational control of red blood cell development. Alvarez-Dominguez JR, et al. Blood, 2017 Feb 2. PMID 27899360, Free PMC Article
  5. ATG5 is required for B cell polarization and presentation of particulate antigens. Arbogast F, et al. Autophagy, 2019 Feb. PMID 30196744, Free PMC Article

See all (20) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC102342

Gene Ontology Provided by MGI

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 ISO
Inferred from Sequence Orthology
more info
  
enables RNA-3'-phosphate cyclase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in RNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of optical nerve axon regeneration IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISS
Inferred from Sequence or Structural Similarity
more info
  
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 cyclase
RNA terminal phosphate cyclase domain 1
RNA terminal phosphate cyclase domain-containing protein 1
RNA-3'-phosphate cyclase
NP_079793.2
XP_006501946.1
XP_006501947.1
XP_030108613.1

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_025517.3 → NP_079793.2  RNA 3'-terminal phosphate cyclase

    See identical proteins and their annotated locations for NP_079793.2

    Status: VALIDATED

    Source sequence(s)
    AK152129, AK159961, BM899781
    Consensus CDS
    CCDS17786.1
    UniProtKB/Swiss-Prot
    Q3TVV2, Q9D7H3
    UniProtKB/TrEMBL
    Q3TIJ4, Q3UAE6, Q5BLJ4
    Related
    ENSMUSP00000000348.9, ENSMUST00000000348.15
    Conserved Domains (2) summary
    cd00874
    Location:8 → 340
    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 → 338
    RTC; RNA 3'-terminal phosphate cyclase

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000069.7 Reference GRCm39 C57BL/6J

    Range
    116282612..116301852 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006501884.3 → XP_006501947.1  RNA 3'-terminal phosphate cyclase isoform X2

    See identical proteins and their annotated locations for XP_006501947.1

    Conserved Domains (1) summary
    pfam01137
    Location:1 → 232
    RTC; RNA 3'-terminal phosphate cyclase

  2. XM_006501883.2 → XP_006501946.1  RNA 3'-terminal phosphate cyclase isoform X1

    UniProtKB/TrEMBL
    Q3TIJ4, Q3UAE6, Q5BLJ4
    Conserved Domains (1) summary
    pfam01137
    Location:2 → 281
    RTC; RNA 3'-terminal phosphate cyclase

  3. XM_030252753.2 → XP_030108613.1  RNA 3'-terminal phosphate cyclase isoform X2

    Conserved Domains (1) summary
    pfam01137
    Location:1 → 232
    RTC; RNA 3'-terminal phosphate cyclase

RNA

  1. XR_001783733.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9D7H3.2 GenPept UniProtKB/Swiss-Prot:Q9D7H3

Gene LinkOut

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