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

Gene ID: 66368, updated on 11-Apr-2024

Summary

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. Predicted to be involved in RNA processing. 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, Apr 2022]
Expression
Ubiquitous expression in testis adult (RPKM 35.2), CNS E11.5 (RPKM 29.0) and 28 other tissues See more
Orthologs
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Genomic context

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

Expression

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

Variation

Alleles

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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 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
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
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

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_025517.3NP_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:8340
    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:12338
    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_006501884.3XP_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:1232
    RTC; RNA 3'-terminal phosphate cyclase
  2. XM_006501883.2XP_006501946.1  RNA 3'-terminal phosphate cyclase isoform X1

    UniProtKB/TrEMBL
    Q3TIJ4, Q3UAE6, Q5BLJ4
    Conserved Domains (1) summary
    pfam01137
    Location:2281
    RTC; RNA 3'-terminal phosphate cyclase
  3. XM_030252753.2XP_030108613.1  RNA 3'-terminal phosphate cyclase isoform X2

    Conserved Domains (1) summary
    pfam01137
    Location:1232
    RTC; RNA 3'-terminal phosphate cyclase

RNA

  1. XR_001783733.1 RNA Sequence