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

    Gene ID: 8634, updated on 9-Dec-2024

    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; AllianceGenome:HGNC:17981
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See RTCA in Genome Data Viewer
    Location:
    1p21.2
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (100266216..100292769)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (100114188..100140722)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (100731772..100758325)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene dihydrolipoamide branched chain transacylase E2 Neighboring gene brain protein I3 pseudogene 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:100708816-100709049 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:100714559-100715118 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:100715119-100715678 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:100731463-100732012 Neighboring gene RTCA antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 14415 Neighboring gene microRNA 553 Neighboring gene OCT4 hESC enhancer GRCh37_chr1:100790862-100791444 Neighboring gene chromosome 5 open reading frame 15 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1379 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1380 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1119 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1120 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1381 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1382 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

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA binding HDA PubMed 
    enables RNA-3'-phosphate cyclase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA-3'-phosphate cyclase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of optical nerve axon regeneration IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 terminal phosphate cyclase domain 1
    RNA terminal phosphate cyclase domain-containing protein 1
    RTC domain-containing protein 1
    NP_001124313.1
    NP_003720.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001130841.2NP_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, BC012604, CA437545, CF141820, DA361597, DB576272
      Consensus CDS
      CCDS44178.1
      UniProtKB/TrEMBL
      A8K8K1
      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, Q5VVL5, Q5VVL6, Q96E99
      UniProtKB/TrEMBL
      A8K8K1
      Related
      ENSP00000359146.4, ENST00000370128.9
      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: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      100266216..100292769
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      100114188..100140722
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)