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Pre-mRNA cleavage complex II protein family [ Arabidopsis thaliana (thale cress) ]

Gene ID: 830968, updated on 18-Sep-2024

Summary

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Official Full Name
Pre-mRNA cleavage complex II protein family
Primary source
TAIR:AT5G11010
Locus tag
AT5G11010
See related
Araport:AT5G11010
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Arabidopsis thaliana (ecotype: Columbia)
Lineage
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as
T30N20.280; T30N20_280
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Genomic context

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Location:
chromosome: 5
Exon count:
9
Sequence:
Chromosome: 5; NC_003076.8 (3483632..3486267)

Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene SAUR-like auxin-responsive protein family Neighboring gene hypothetical protein (DUF868) Neighboring gene Protein kinase superfamily protein Neighboring gene aberrant root formation protein Neighboring gene TRS120

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003076.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Capturing the phosphorylation and protein interaction landscape of the plant TOR kinase. Van Leene J, et al. Nat Plants, 2019 Mar. PMID 30833711
  2. Extensive signal integration by the phytohormone protein network. Altmann M, et al. Nature, 2020 Jul. PMID 32612234
  3. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

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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Homology

NM_001343144.1
NM_001343145.1
NM_121139.1
NM_180474.2

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables polynucleotide 5'-hydroxyl-kinase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in rRNA processing ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in nucleus ISM
Inferred from Sequence Model
more info
  

General protein information

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Preferred Names
Pre-mRNA cleavage complex II protein family
NP_001318534.1
  • Pre-mRNA cleavage complex II protein family; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Pre-mRNA cleavage complex II Clp1 (InterPro:IPR010655); BEST Arabidopsis thaliana protein match is: CLP-similar protein 3 (TAIR:AT3G04680.2); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
NP_568243.1
  • Pre-mRNA cleavage complex II protein family; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Pre-mRNA cleavage complex II Clp1 (InterPro:IPR010655); BEST Arabidopsis thaliana protein match is: CLP-similar protein 3 (TAIR:AT3G04680.2); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
NP_850805.1
  • Pre-mRNA cleavage complex II protein family; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Pre-mRNA cleavage complex II Clp1 (InterPro:IPR010655); BEST Arabidopsis thaliana protein match is: CLP-similar protein 3 (TAIR:AT3G04680.2); Has 601 Blast hits to 594 proteins in 238 species: Archae - 54; Bacteria - 6; Metazoa - 220; Fungi - 142; Plants - 83; Viruses - 0; Other Eukaryotes - 96 (source: NCBI BLink).

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_003076.8 Reference assembly

    Range
    3483632..3486267
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001343144.1 → NP_001318534.1  Pre-mRNA cleavage complex II protein family [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q8VYP6, Q945L9, Q9LEU0
    UniProtKB/TrEMBL
    A0A178UTG2, A0A5S9Y3U0, A0A7G2F6L6
    Conserved Domains (2) summary
    COG1341
    Location:10 → 345
    Grc3; Polynucleotide 5'-kinase, involved in rRNA processing [Translation, ribosomal structure and biogenesis]
    pfam16575
    Location:36 → 174
    CLP1_P; mRNA cleavage and polyadenylation factor CLP1 P-loop

  2. NM_180474.2 → NP_850805.1  Pre-mRNA cleavage complex II protein family [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_850805.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q8VYP6, Q945L9, Q9LEU0
    UniProtKB/TrEMBL
    A0A178UTG2, A0A5S9Y3U0, A0A7G2F6L6
    Conserved Domains (2) summary
    COG1341
    Location:10 → 345
    Grc3; Polynucleotide 5'-kinase, involved in rRNA processing [Translation, ribosomal structure and biogenesis]
    pfam16575
    Location:36 → 174
    CLP1_P; mRNA cleavage and polyadenylation factor CLP1 P-loop

  3. NM_001343145.1 → NP_001330301.1  Pre-mRNA cleavage complex II protein family [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q8VYP6, Q945L9, Q9LEU0
    UniProtKB/TrEMBL
    A0A178UTG2, A0A5S9Y3U0, A0A7G2F6L6
    Conserved Domains (2) summary
    COG1341
    Location:10 → 345
    Grc3; Polynucleotide 5'-kinase, involved in rRNA processing [Translation, ribosomal structure and biogenesis]
    pfam16575
    Location:36 → 174
    CLP1_P; mRNA cleavage and polyadenylation factor CLP1 P-loop

  4. NM_121139.1 → NP_568243.1  Pre-mRNA cleavage complex II protein family [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_568243.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A7G2F6L6
    Conserved Domains (1) summary
    pfam16575
    Location:36 → 174
    CLP1_P; mRNA cleavage and polyadenylation factor CLP1 P-loop
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8VYP6.1

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