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RTCA RNA 3'-terminal phosphate cyclase [ Homo sapiens (human) ]

Gene ID: 8634, updated on 7-Jun-2020

Summary

Official Symbol
RTCAprovided by HGNC
Official Full Name
RNA 3'-terminal phosphate cyclaseprovided by HGNC
Primary source
HGNC:HGNC:17981
See related
Ensembl:ENSG00000137996 MIM:611286
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
RPC; RTC1; RTCD1
Summary
This gene encodes a member of the RNA 3'-phosphate cyclase family. The encoded protein plays a role in RNA metabolism by catalyzing the ATP-dependent conversion of the 3'-phosphate of RNA substrates to a 2',3'-cyclic phosphodiester. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Feb 2012]
Expression
Ubiquitous expression in duodenum (RPKM 10.7), kidney (RPKM 10.6) and 25 other tissues See more
Orthologs

Genomic context

See RTCA in Genome Data Viewer
Location:
1p21.2
Exon count:
12
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (100266158..100292769)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (100731714..100758325)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ribosomal protein L23a pseudogene 90 Neighboring gene dihydrolipoamide branched chain transacylase E2 Neighboring gene brain protein I3 pseudogene 1 Neighboring gene RTCA antisense RNA 1 Neighboring gene microRNA 553 Neighboring gene chromosome 5 open reading frame 15 pseudogene Neighboring gene cell division cycle 14A Neighboring gene BCAS2 pseudogene 2

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
RNA binding HDA PubMed 
RNA-3'-phosphate cyclase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
RNA processing IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
RNA 3'-terminal phosphate cyclase
Names
RNA terminal phosphate cyclase domain 1
RNA terminal phosphate cyclase domain-containing protein 1
RTC domain-containing protein 1
NP_001124313.1
NP_003720.1
XP_005271355.1
XP_005271356.1
XP_016858158.1

NCBI Reference Sequences (RefSeq)

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_001130841.1NP_001124313.1  RNA 3'-terminal phosphate cyclase isoform a

    See identical proteins and their annotated locations for NP_001124313.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AI587400, AL445928, AL663111, AU310497, BC012604, CA437545, CF141820, DA361597, DB576272
    Consensus CDS
    CCDS44178.1
    UniProtKB/Swiss-Prot
    O00442
    Related
    ENSP00000260563.4, ENST00000260563.4
    Conserved Domains (2) summary
    cd00874
    Location:8353
    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 ...
    TIGR03399
    Location:6350
    RNA_3prim_cycl; RNA 3'-phosphate cyclase
  2. NM_003729.4NP_003720.1  RNA 3'-terminal phosphate cyclase isoform b

    See identical proteins and their annotated locations for NP_003720.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a.
    Source sequence(s)
    AI587400, AL663111, CA437545, CF141820, DA361597, DB576272, Y11651
    Consensus CDS
    CCDS768.1
    UniProtKB/Swiss-Prot
    O00442
    Related
    ENSP00000359146.4, ENST00000370128.8
    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 ...
    TIGR03399
    Location:6337
    RNA_3prim_cycl; RNA 3'-phosphate cyclase

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    100266158..100292769
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005271299.4XP_005271356.1  RNA 3'-terminal phosphate cyclase isoform X1

    See identical proteins and their annotated locations for XP_005271356.1

    Conserved Domains (2) summary
    cl00288
    Location:1283
    EPT_RTPC-like; This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a ...
    pfam01137
    Location:1281
    RTC; RNA 3'-terminal phosphate cyclase
  2. XM_005271298.5XP_005271355.1  RNA 3'-terminal phosphate cyclase isoform X1

    See identical proteins and their annotated locations for XP_005271355.1

    Conserved Domains (2) summary
    cl00288
    Location:1283
    EPT_RTPC-like; This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a ...
    pfam01137
    Location:1281
    RTC; RNA 3'-terminal phosphate cyclase
  3. XM_017002669.1XP_016858158.1  RNA 3'-terminal phosphate cyclase isoform X1

    Conserved Domains (2) summary
    cl00288
    Location:1283
    EPT_RTPC-like; This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a ...
    pfam01137
    Location:1281
    RTC; RNA 3'-terminal phosphate cyclase
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