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    Putative eukaryotic LigT [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 820869, updated on 18-Sep-2024

    Summary

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    Official Full Name
    Putative eukaryotic LigT
    Primary source
    TAIR:AT3G16230
    Locus tag
    AT3G16230
    See related
    Araport:AT3G16230
    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
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    Genomic context

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    Location:
    chromosome: 3
    Exon count:
    14
    Sequence:
    Chromosome: 3; NC_003074.8 (5500054..5503573)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene Putative eukaryotic LigT Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene delta tonoplast integral protein Neighboring gene ncRNA Neighboring gene NDH-dependent cyclic electron flow 1 Neighboring gene ncRNA

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Experimental analysis of the Arabidopsis mitochondrial proteome highlights signaling and regulatory components, provides assessment of targeting prediction programs, and indicates plant-specific mitochondrial proteins. Heazlewood JL, et al. Plant Cell, 2004 Jan. PMID 14671022, Free PMC Article
    2. Evidence for network evolution in an Arabidopsis interactome map. Arabidopsis Interactome Mapping Consortium. Science, 2011 Jul 29. PMID 21798944, Free PMC Article
    3. Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat M, et al. Nature, 2000 Dec 14. PMID 11130713

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001202981.1
    NM_001338214.1
    NM_001338215.1
    NM_001338216.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA alkylation repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  
    located_in cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  
    located_in mitochondrion HDA PubMed 

    General protein information

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    Preferred Names
    Putative eukaryotic LigT
    NP_001189909.1
    • Predicted eukaryotic LigT; FUNCTIONS IN: RNA binding, catalytic activity; INVOLVED IN: RNA metabolic process, regulation of transcription; LOCATED IN: mitochondrion; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: K Homology, type 1, subgroup (InterPro:IPR018111), K Homology (InterPro:IPR004087), K Homology, type 1 (InterPro:IPR004088), Predicted eukaryotic LigT (InterPro:IPR009210), RNA ligase/cyclic nucleotide phosphodiesterase (InterPro:IPR009097), Protein kinase A anchor protein, nuclear localisation signal domain (InterPro:IPR019510); BEST Arabidopsis thaliana protein match is: Predicted eukaryotic LigT (TAIR:AT3G16220.1).
    NP_001189910.1
    • Predicted eukaryotic LigT; FUNCTIONS IN: RNA binding, catalytic activity; INVOLVED IN: RNA metabolic process, regulation of transcription; LOCATED IN: mitochondrion; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: K Homology, type 1, subgroup (InterPro:IPR018111), K Homology (InterPro:IPR004087), K Homology, type 1 (InterPro:IPR004088), Predicted eukaryotic LigT (InterPro:IPR009210), RNA ligase/cyclic nucleotide phosphodiesterase (InterPro:IPR009097), Protein kinase A anchor protein, nuclear localisation signal domain (InterPro:IPR019510); BEST Arabidopsis thaliana protein match is: Predicted eukaryotic LigT (TAIR:AT3G16220.1).
    NP_001319566.1
    • Predicted eukaryotic LigT; FUNCTIONS IN: RNA binding, catalytic activity; INVOLVED IN: RNA metabolic process, regulation of transcription; LOCATED IN: mitochondrion; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: K Homology (InterPro:IPR004087), K Homology, type 1, subgroup (InterPro:IPR018111), K Homology, type 1 (InterPro:IPR004088), Predicted eukaryotic LigT (InterPro:IPR009210), RNA ligase/cyclic nucleotide phosphodiesterase (InterPro:IPR009097), Protein kinase A anchor protein, nuclear localisation signal domain (InterPro:IPR019510); BEST Arabidopsis thaliana protein match is: Predicted eukaryotic LigT (TAIR:AT3G16220.1); Has 263 Blast hits to 258 proteins in 85 species: Archae - 0; Bacteria - 0; Metazoa - 179; Fungi - 13; Plants - 46; Viruses - 0; Other Eukaryotes - 25 (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_003074.8 Reference assembly

      Range
      5500054..5503573
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001338217.1 → NP_001326069.1  Putative eukaryotic LigT [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN58, A0A5S9XD61, A0A654F8R6
      Conserved Domains (2) summary
      cl00098
      Location:105 → 167
      KH-I; K homology (KH) RNA-binding domain, type I
      cl26521
      Location:178 → 355
      AKAP7_NLS; AKAP7 2'5' RNA ligase-like domain

    2. NM_001338219.1 → NP_001326068.1  Putative eukaryotic LigT [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN58, A0A5S9XD61, A0A654F8R6
      Conserved Domains (2) summary
      cl00098
      Location:105 → 167
      KH-I; K homology (KH) RNA-binding domain, type I
      cl26521
      Location:178 → 355
      AKAP7_NLS; AKAP7 2'5' RNA ligase-like domain

    3. NM_001338218.1 → NP_001326070.1  Putative eukaryotic LigT [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN59, A0A5S9XD61, A0A654F8R6
      Conserved Domains (2) summary
      cl00098
      Location:105 → 167
      KH-I; K homology (KH) RNA-binding domain, type I
      cl26521
      Location:178 → 378
      AKAP7_NLS; AKAP7 2'5' RNA ligase-like domain

    4. NM_001338212.1 → NP_001319566.1  Putative eukaryotic LigT [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VJ39, A0A384KSP6, A0A5S9XD61, A0A654F8R6, F4J1H2, F4J1H3
      Conserved Domains (2) summary
      cl00098
      Location:105 → 167
      KH-I; K homology (KH) RNA-binding domain, type I
      cl26521
      Location:178 → 444
      AKAP7_NLS; AKAP7 2'5' RNA ligase-like domain

    5. NM_001338220.1 → NP_001326071.1  Putative eukaryotic LigT [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN58, A0A5S9XD61, A0A654F8R6
      Conserved Domains (2) summary
      cl00098
      Location:105 → 167
      KH-I; K homology (KH) RNA-binding domain, type I
      cl26521
      Location:178 → 355
      AKAP7_NLS; AKAP7 2'5' RNA ligase-like domain

    6. NM_001338222.1 → NP_001326067.1  Putative eukaryotic LigT [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN58, A0A5S9XD61, A0A654F8R6
      Conserved Domains (2) summary
      cl00098
      Location:105 → 167
      KH-I; K homology (KH) RNA-binding domain, type I
      cl26521
      Location:178 → 355
      AKAP7_NLS; AKAP7 2'5' RNA ligase-like domain

    7. NM_001338221.1 → NP_001326066.1  Putative eukaryotic LigT [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN59, A0A5S9XD61, A0A654F8R6
      Conserved Domains (2) summary
      cl00098
      Location:105 → 167
      KH-I; K homology (KH) RNA-binding domain, type I
      cl26521
      Location:178 → 378
      AKAP7_NLS; AKAP7 2'5' RNA ligase-like domain

    8. NM_001338213.1 → NP_001326072.1  Putative eukaryotic LigT [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VJ39, A0A384KSP6, A0A5S9XD61, A0A654F8R6, F4J1H2, F4J1H3
      Conserved Domains (2) summary
      cl00098
      Location:105 → 167
      KH-I; K homology (KH) RNA-binding domain, type I
      cl26521
      Location:178 → 444
      AKAP7_NLS; AKAP7 2'5' RNA ligase-like domain

    9. NM_001202980.2 → NP_001189909.1  Putative eukaryotic LigT [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001189909.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VJ39, A0A384KSP6, A0A5S9XD61, A0A654F8R6, F4J1H2, F4J1H3
      Conserved Domains (2) summary
      cl00098
      Location:105 → 167
      KH-I; K homology (KH) RNA-binding domain, type I
      cl26521
      Location:178 → 444
      AKAP7_NLS; AKAP7 2'5' RNA ligase-like domain

    10. NM_001202981.1 → NP_001189910.1  Putative eukaryotic LigT [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001189910.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN63, B9DH47
      Conserved Domains (3) summary
      PLN00108
      Location:138 → 404
      PLN00108; unknown protein; Provisional
      pfam10469
      Location:138 → 403
      AKAP7_NLS; AKAP7 2'5' RNA ligase-like domain
      cl00098
      Location:63 → 123
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...

    11. NM_001338214.1 → NP_001326073.1  Putative eukaryotic LigT [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN59, A0A5S9XD61, A0A654F8R6
      Conserved Domains (2) summary
      cl00098
      Location:105 → 167
      KH-I; K homology (KH) RNA-binding domain, type I
      cl26521
      Location:178 → 378
      AKAP7_NLS; AKAP7 2'5' RNA ligase-like domain

    12. NM_001338215.1 → NP_001326074.1  Putative eukaryotic LigT [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN63, B9DH47

    13. NM_001338216.1 → NP_001326075.1  Putative eukaryotic LigT [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LN64, B9DH47
    Nucleotide Protein
    Heading Accession and Version

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