K30632

RIKEN rice full-length cDNA overexpressed Arabidopsis lines

Original: K30632

Phenotypes

Morphological phenotypes

Generation Anatomical entity
/structure development stage		 Phenotypes
T2 seed (PO:0009010)
  • decreased size (PATO:0000587)
    (Seed::Shape::small)

Invisible phenotypes

Specific phenotypes were NOT observed.

Original: K30632

Determination of introduced cDNA(s)

  • J023006N01 - Rice Full-length cDNAs - Original: J023006N01

    full reading [+] show sequence

    Nucleotide sequence: J023006N01 - full reading 
    GACCCCTCCA CTTCTCCTTC TCCTGCGCCG CCTCATCTTA TCTCGCCAAT 
    CCCCCTTCGT CGCGCGCGCA AGGCTAAACC CTAGCTCCTC CGCGGCTCCG 
    CCCCCACCGC CTAAACCCTA GTTCGGAGAG TTGCGTGCGG GCGTGGTGCG 
    GGAGGATGGC CGAGCCCTCC AAGGTGATCC ACATACGGAA CGTCGGGCAT 
    GAGATCTCCG AGAGCGAACT GCTCCAGGTG GTGCAGCCGT TCGGCACTGT 
    CGCCAAGCTC GTCATGCTGC GTGCTAAGAA CCAGATGGAG GATTTAGCTT 
    CTGCTGTGAA TGTGATCCAA TACTACAATA CAATTCAACC CAGTGTAAGG 
    GGAAGAAATG TTTACTTGCA ATATTCATCC CACCAAGAAT TGACTACTGA 
    TCAGAGCTCT CATGGACGAA ATCCTGATCA GGAAGAACCT AACCGAATTC 
    TGTTAGTAAC CATTCATCAT ATGCTTTACC CTATAACCAT TGAAGTGCTT 
    CATCAAGTGT TTTCTCCCTA TGGATTTGTG GAGAAGATAG TCACATTTCA 
    AAAGTCAGCC GGCTTTCAAA CCCTCATACA ATATCAGTCA CGTCAAAGTG 
    CAATACAAGC TTATGGTGCT TTACATGGAC GGAACATATA TGATGGTTGC 
    TGCCAGCTAG ACATTCAATA TTCTAATCTC AGCGAATTGC AAGTTCACTA 
    CAACAACGAT AGATCTAGAG ATTTCACAAA TCCATCTTTG CCTACAGAAC 
    AACGCTCAAG ATCATCTCAG CCTAGTTATA ATGATCCAAG CAGTTTGTTT 
    GGTTTCCAGC AACCTGGAGA TCCGTATGCA CAGATGAGTA AGGCAGCAAT 
    GATCGCTGCT GCTTTTGGTG GAACATTGCC TCCTGGAGTG TCTGGCATCA 
    ATGACCGTTG CACACTTCTA GTTAGCAATC TGAACACTGA TAAAATTGAT 
    GAGGATAAGC TCTTCAACCT TTTCTCAATG TATGGGAATA TCGTGCGTAT 
    CAAGATACTC AAAAATAAAC CAGATCATGC CCTCATCCAG ATGGCTGACG 
    GGCTTCAGGC TGAGCTTGCT GTACTGTATT TAAAGGGAGC AATGCTATTC 
    GGAAAGAAGC TTGAAGTGAA CTACTCCAAG TACCCAACCG TTACTGCTGA 
    TCCAGATGCA CGTGACTACT CAACTTCTCA CCTCAACAGA TTTAACAGCA 
    ATGTGGTGAA GAACTACCGC CACTGTTGCG CCCCAACCAA GATGATCCAC 
    ATCTCAGCGC TTCCACAGGA CATAACTGAA GATACCATCC ATTCCCTTGT 
    TGGTGAGCAT GGGACTATCG CCAACTCAAG ACTGTTCGAG ACGAACGGCA 
    AAACGCAGGC CCTTGTGCTG TTTGAAAGCG TGGAAGAGGC AACAGAGGCG 
    CTCGTGGAGA AGCACGCAAG CAAGCTGGAC CGAACCAACA TCAGGATTTC 
    CTTCTCACAG ATGCAGAATA TATAGTTCTT TCCTGGGAAT TGTGAGGAGC 
    CAAAGCTATA AGCTTACCTT AACTTTTGGA TTTCGTGCAC TTAGCTTGCA 
    TGAACCGATA TATGTTTCAC CTTTGCCCAA AAAGTGGTGT GAACTGTCTT 
    TCATGTATGG ATGGATGGAT CAGTTAAACC CGTGTTCTCT GTTATGTGAT 
    GCCCCCTCTT ATGCAATTCA GCATGGATAT GTTAAACCTG TGCTCATATG 
    CCCTAAAAAT GGTGTACACT TTCTTAATGA ATATATATCA CTGCAGTGGT 
    TTGACGATCG

    Gene models with high sequence identity

    1. AT1G43190.2 [+] show detail - polypyrimidine tract-binding protein 3
      E-value: 5e-171; Score: 598.00

     

    InterPro Scan Digest

    Program Description E-value
    HMMTigr HnRNP-L/PTB/hephaestus splicing factor 4.8e-100
    HMMPfam RNA recognition motif, RNP-1 2.6e-07
    HMMPfam RNA recognition motif, RNP-1 3.1e-07
    superfamily RNA-binding domain, RBD 2.2e-23
    superfamily RNA-binding domain, RBD 1.1e-19
    superfamily RNA-binding domain, RBD 8.3e-15
    superfamily RNA-binding domain, RBD 3.4e-14
    ProfileScan RNA recognition motif, RNP-1 13.208
    ProfileScan RNA recognition motif, RNP-1 11.247
    HMMSmart RNA recognition motif, RNP-1 0.0004
    HMMSmart RNA recognition motif, RNP-1 0.39
    HMMSmart RNA recognition motif, RNP-1 1.2e-12
    HMMSmart RNA recognition motif, RNP-1 1.5e-05
    Gene3D Nucleotide-binding, alpha-beta plait 2.2e-41
    Gene3D Nucleotide-binding, alpha-beta plait 9.9e-28
    Gene3D Nucleotide-binding, alpha-beta plait 5.6e-26
    HMMPanther POLYPYRIMIDINE TRACT BINDING PROTEIN 1, 2 1.7e-151
    HMMPanther HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN 1.7e-151

    See the detailed result >

    AT1G43190.2

    Model type
    Protein coding
    Short Description
    polypyrimidine tract-binding protein 3
    Computational Description
    polypyrimidine tract-binding protein 3 (PTB3); FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: regulation of RNA splicing, regulation of translation; LOCATED IN: nucleus, cytoplasmic mRNA processing body, cytoplasm; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), HnRNP-L/PTB/hephaestus splicing factor (InterPro:IPR006536), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677); BEST Arabidopsis thaliana protein match is: polypyrimidine tract-binding protein 1 (TAIR:AT3G01150.1); Has 2350 Blast hits to 1929 proteins in 173 species: Archae - 0; Bacteria - 0; Metazoa - 1455; Fungi - 41; Plants - 581; Viruses - 0; Other Eukaryotes - 273 (source: NCBI BLink).
    Link
    InterPro Scan - TAIR