K20205

RIKEN rice full-length cDNA overexpressed Arabidopsis lines

Original: K20205

Phenotypes

Morphological phenotypes

Generation Anatomical entity
/structure development stage		 Phenotypes
T2 seed (PO:0009010)
  • decreased width (PATO:0000599)
    (Seed::Shape::narrow)

Invisible phenotypes

Specific phenotypes were NOT observed.

Original: K20205

Determination of introduced cDNA(s)

  • J023080F19 - Rice Full-length cDNAs - Original: J023080F19

    full reading [+] show sequence

    Nucleotide sequence: J023080F19 - full reading 
    GGATCAACCA TCACCTCTTT CACACCATAT CCTATAATGG CGAACTCACC 
    GACGCCGACA ATGCTGGCGT TCCTGGCTCT TGGGCTAGCG CTCCTCCTCT 
    CCGCCACCGG CCAGGCGAGC GCGCAGAACT GCGGCTGCCA GTCGAACATG 
    TGCTGCAGCA AATGGGGGTA CTGCGGCACG GGCAAGGACT ACTGCGGAGA 
    TGGGTGCCGC TCTGGCCCGT GCTACGGCGG CGGCGGCGGT GGAGGAGGAG 
    GAGGCGGAGG TGGTGGAGGC GGAGGCGGAG GCAGCGGCGT GTCTGTAGAG 
    AGCGTGGTCA CCGAGGCGTT CTTCAATGGG ATCAAGAACC AGGCCCCGAA 
    CGGTTGCGCC GGCAAGAACT TTTACACACG ACAGTCGTTT CTTAACGCTG 
    CCCACTCCTA CTCGGGCTTC GCCAGGGACC GCACCAACGA TGACTCCAAG 
    CGTGAGATCG CTGCCTTCTT TGCCCACGTC ACTCATGAGA CCGGACATAT 
    GTGCTACATC AACGAGATAA ACGGGGCGAG CATGGACTAC TGCGACAAGA 
    ACAACAAGCA GTGGCCGTGC CAGCCGGGGA AGAAGTACTA CGGGCGCGGG 
    CCGCTGCAGA TCTCGTGGAA CTACAACTAC GGGCCTGCGG GGCAGAACAT 
    CGGGTTCGAC GGGCTGAGGG ACCCGGACAG GGTGGCGCAG GACCCGACGA 
    TCTCCTTCAA GACGGCGCTC TGGTTCTGGA TGAACAACGT GCACCAGGTG 
    ATGTTGCAGG GGTTCGGCGC CACCATCCGG GCCATCAACG GTGCGCTCGA 
    GTGCAACGGC AAGAACCCCG GCGCCGTCAA CGCAAGGGTA AACTACTACA 
    AAGACTACTG CCGCCAATTC GGCGTTGACC CGGGTGGCAA CCTTTACTGT 
    TGAGTTACAT GCACACATGC TGCGCGGCTC ATCGATCAGG ACTGAATAAT 
    AAACAAAGTA ATGACGAATA AAACGTTTGG TGTGTACGTA CATTGCATGC 
    ACGTACGGTA CATGTTGCAA GTGACGTCAA GAGTTTGGTA CGGATAAATA 
    TGAAAAATAA AATGTTGGGA TCAGGATTAA ATG

    Gene models with high sequence identity

    1. AT3G54420.1 [+] show detail - homolog of carrot EP3-3 chitinase
      E-value: 1e-95; Score: 347.00

     

    InterPro Scan Digest

    Program Description E-value
    PatternScan Chitin-binding, type 1, conserved site 0
    PatternScan Glycoside hydrolase, family 19, catalytic 0
    PatternScan Glycoside hydrolase, family 19, catalytic 0
    Gene3D no description 5.6e-59
    superfamily Lysozyme-like 4.8e-87
    superfamily Chitin-binding, type 1 1.3e-09
    HMMPIR Glycoside hydrolase, family 19 6.1e-167
    BlastProDom Chitin-binding, type 1 1e-11
    Coil coiled-coil 0
    HMMSmart Chitin-binding, type 1 8.3e-11
    HMMPanther CLASS IV CHITINASE 1.9e-86
    HMMPanther Glycoside hydrolase, family 19, catalytic 1.9e-86
    HMMPfam Glycoside hydrolase, family 19, catalytic 1.7e-77
    HMMPfam Chitin-binding, type 1 5.4e-09
    ProfileScan Chitin-binding, type 1 9.593

    See the detailed result >

    AT3G54420.1

    Model type
    Protein coding
    Short Description
    homolog of carrot EP3-3 chitinase
    Curator Summary
    encodes an EP3 chitinase that is expressed during somatic embryogenesis in 'nursing' cells surrounding the embryos but not in embryos themselves. The gene is also expressed in mature pollen and growing pollen tubes until they enter the receptive synergid, but not in endosperm and integuments as in carrot. Post-embryonically, expression is found in hydathodes, stipules, root epidermis and emerging root hairs.
    Computational Description
    homolog of carrot EP3-3 chitinase (EP3); FUNCTIONS IN: chitinase activity; INVOLVED IN: somatic embryogenesis, plant-type hypersensitive response; LOCATED IN: cell wall; EXPRESSED IN: 18 plant structures; EXPRESSED DURING: 6 growth stages; CONTAINS InterPro DOMAIN/s: Chitin-binding, type 1, conserved site (InterPro:IPR018371), Glycoside hydrolase, family 19 (InterPro:IPR016283), Chitin-binding, type 1 (InterPro:IPR001002), Glycoside hydrolase, family 19, catalytic (InterPro:IPR000726); BEST Arabidopsis thaliana protein match is: Chitinase family protein (TAIR:AT2G43590.1); Has 2660 Blast hits to 2432 proteins in 504 species: Archae - 0; Bacteria - 547; Metazoa - 34; Fungi - 178; Plants - 1776; Viruses - 22; Other Eukaryotes - 103 (source: NCBI BLink).
    Link
    InterPro Scan - TAIR