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clpf-1 Pre-mRNA cleavage complex subunit Clp1 C-terminal domain-containing protein;Protein clpf-1 [ Caenorhabditis elegans ]

Gene ID: 175442, updated on 11-Apr-2024

Summary

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Gene symbol
clpf-1
Gene description
Pre-mRNA cleavage complex subunit Clp1 C-terminal domain-containing protein;Protein clpf-1
Primary source
WormBase:WBGene00010304
Locus tag
CELE_F59A2.4
See related
AllianceGenome:WB:WBGene00010304
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Caenorhabditis elegans (strain: Bristol N2)
Lineage
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary
Enables polyribonucleotide 5'-hydroxyl-kinase activity. Involved in nucleotide phosphorylation. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 10. Orthologous to human CLP1 (cleavage factor polyribonucleotide kinase subunit 1). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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Location:
chromosome: III
Exon count:
8
Sequence:
Chromosome: III; NC_003281.10 (3397743..3400644)

Chromosome III - NC_003281.10Genomic Context describing neighboring genes Neighboring gene ELMO domain-containing protein;ELMO domain-containing protein C56G7.3 Neighboring gene Myosin regulatory light chain Neighboring gene Conserved regulator of innate immunity protein 3 Neighboring gene Nuclear Pore complex Protein Neighboring gene ACT domain-containing protein

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003281.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. RNA specificity and regulation of catalysis in the eukaryotic polynucleotide kinase Clp1. Dikfidan A, et al. Mol Cell, 2014 Jun 19. PMID 24813946
  2. Genes involved in pre-mRNA 3'-end formation and transcription termination revealed by a lin-15 operon Muv suppressor screen. Cui M, et al. Proc Natl Acad Sci U S A, 2008 Oct 28. PMID 18946043, Free PMC Article
  3. The Regulatory Landscape of Lineage Differentiation in a Metazoan Embryo. Du Z, et al. Dev Cell, 2015 Sep 14. PMID 26321128, Free PMC Article
  4. A global analysis of genetic interactions in Caenorhabditis elegans. Byrne AB, et al. J Biol, 2007. PMID 17897480, Free PMC Article
  5. Large-scale RNAi screens identify novel genes that interact with the C. elegans retinoblastoma pathway as well as splicing-related components with synMuv B activity. Ceron J, et al. BMC Dev Biol, 2007 Apr 6. PMID 17417969, Free PMC Article

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by WormBase

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
  
enables polynucleotide 5'-hydroxyl-kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables polynucleotide 5'-hydroxyl-kinase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in RNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA 3'-end processing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in tRNA splicing, via endonucleolytic cleavage and ligation IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
Pre-mRNA cleavage complex subunit Clp1 C-terminal domain-containing protein;Protein clpf-1
NP_001040858.1
  • Confirmed by transcript evidence
NP_001040859.1
  • Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

  1. NC_003281.10 Reference assembly

    Range
    3397743..3400644
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001047393.5 → NP_001040858.1  Protein clpf-1 [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_001040858.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    P52874
    Conserved Domains (4) summary
    COG5623
    Location:6 → 423
    CLP1; Predicted GTPase subunit of the pre-mRNA cleavage complex [Translation, ribosomal structure and biogenesis]
    pfam06807
    Location:313 → 423
    Clp1; Pre-mRNA cleavage complex II protein Clp1
    pfam16573
    Location:9 → 100
    CLP1_N; N-terminal beta-sandwich domain of polyadenylation factor
    pfam16575
    Location:121 → 306
    CLP1_P; mRNA cleavage and polyadenylation factor CLP1 P-loop

  2. NM_001047394.4 → NP_001040859.1  Pre-mRNA cleavage complex subunit Clp1 C-terminal domain-containing protein [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_001040859.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q2EEP3
    Conserved Domains (1) summary
    pfam06807
    Location:1 → 80
    Clp1; Pre-mRNA cleavage complex II protein Clp1
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P52874.2

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