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    LOC4339610 homeobox-DDT domain protein RLT2 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4339610, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4339610
    Gene description
    homeobox-DDT domain protein RLT2
    Locus tag
    OSNPB_050562400
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
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    Genomic context

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    See LOC4339610 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (28160428..28171532, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (27975661..27987032, complement)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene protein DEHYDRATION-INDUCED 19-like Neighboring gene dnaJ homolog subfamily B member 4 Neighboring gene protein DMP6 Neighboring gene NAC domain-containing protein 73

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Rice Full-Length cDNA Consortium, et al. Science, 2003 Jul 18. PMID 12869764
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    homeobox-DDT domain protein RLT2
    Names
    Os05g0562400

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_034140825.1-RS_2024_06

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

    Reference ASM3414082v1 Primary Assembly

    Genomic

    1. NC_089039.1 Reference ASM3414082v1 Primary Assembly

      Range
      28160428..28171532 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015783915.3 → XP_015639401.1  homeobox-DDT domain protein RLT2 isoform X2

      Conserved Domains (8) summary
      pfam00046
      Location:59 → 112
      Homeobox; Homeobox domain
      pfam02791
      Location:619 → 674
      DDT; DDT domain
      pfam05066
      Location:796 → 863
      HARE-HTH; HB1, ASXL, restriction endonuclease HTH domain
      pfam12474
      Location:422 → 567
      PKK; Polo kinase kinase
      pfam15612
      Location:1019 → 1064
      WHIM1; WSTF, HB1, Itc1p, MBD9 motif 1
      pfam15614
      Location:1236 → 1274
      WHIM3; WSTF, HB1, Itc1p, MBD9 motif 3
      cd16269
      Location:524 → 535
      GBP_C; coiled coil [structural motif]
      cl20817
      Location:440 → 556
      GBP_C; Guanylate-binding protein, C-terminal domain

    2. XM_015783914.3 → XP_015639400.1  homeobox-DDT domain protein RLT2 isoform X1

      UniProtKB/TrEMBL
      B9FI45
      Conserved Domains (8) summary
      pfam00046
      Location:59 → 112
      Homeobox; Homeobox domain
      pfam02791
      Location:619 → 674
      DDT; DDT domain
      pfam05066
      Location:796 → 863
      HARE-HTH; HB1, ASXL, restriction endonuclease HTH domain
      pfam12474
      Location:422 → 567
      PKK; Polo kinase kinase
      pfam15612
      Location:1019 → 1064
      WHIM1; WSTF, HB1, Itc1p, MBD9 motif 1
      pfam15614
      Location:1236 → 1274
      WHIM3; WSTF, HB1, Itc1p, MBD9 motif 3
      cd16269
      Location:524 → 535
      GBP_C; coiled coil [structural motif]
      cl20817
      Location:440 → 556
      GBP_C; Guanylate-binding protein, C-terminal domain
    Nucleotide Protein
    Heading Accession and Version

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