R90276

RIKEN rice full-length cDNA overexpressed Arabidopsis lines

Original: R90276

Phenotypes

Morphological phenotypes

Generation Anatomical entity
/structure development stage
Phenotypes
T1 whole plant (PO:0000003)
  • decreased height (PATO:0000569)
    (Adult plant::Plant height::short)
rosette leaf (PO:0000014)
  • decreased size (PATO:0000587)
    (Rosette leaf::Shape::small)
  • decreased length (PATO:0000574)
    (Rosette leaf::Shape::short)
  • increased width (PATO:0000600)
    (Rosette leaf::Shape::wide)
stem (PO:0009047)
  • abnormal (PATO:0000460)
    (Stem::Others)

Invisible phenotypes

Specific phenotypes were NOT observed.

Original: R90276

Determination of introduced cDNA(s)

  • J013163D13 - Rice Full-length cDNAs - Original: J013163D13

    full reading [+] show sequence

    Nucleotide sequence: J013163D13 - full reading
    GATCCGTCCT CCTCCTCCTC CTCTCTTCCA TCGCCGCTGC TCGCTTCCTC 
    CCCCTCTCCC ACGAAAGATG GCGTCTCACA TTGTTGGGTA CCCCCGCATG
    GGCCCCAAGA GGGAGCTCAA GTTTGCCCTG GAGTCTTTCT GGGATGGGAA
    GAGCAGCGCT GAGGATTTGG AGAAGGTTGC GACCGACCTC AGGGCCAGCA
    TCTGGAAGCA AATGGCTGAC GCTGGGATCA AGTACATCCC CAGCAACACC
    TTCTCGTACT ATGATCAGGT TCTTGACACG GCTGCCATGC TTGGTGCTGT
    CCCAGAGCGC TACTCATGGA CTGGTGGAGA GATTGGGTTC AGCACCTACT
    TCTCGATGGC TAGGGGCAAT GCCACTGTCC CTGCCATGGA GATGACCAAG
    TGGTTTGACA CCAACTACCA CTTTATCGTC CCTGAACTTG GTCCCAACAC
    CAAGTTCTCC TACTCTTCCC ACAAGGCTGT GAATGAATAC AAGGAGGCTA
    AGGCGCTCGG CGTTGACACC GTGCCAGTAC TTGTTGGACC AGTTTCATAC
    TTGTTGCTCT CCAAACCTGC CAAGGGTGTA GAGAAGTCGT TCGCTCTTCT
    TTCCCTTCTG AGCAGCATCC TTCCTGTCTA CAAGGAGGTT ATTGCTGAGT
    TGAAGGCAGC TGGTGCTACT TGGATTCAGT TTGATGAACC CACACTTGTT
    CTTGACCTTG ACTCTCACCA ATTGGCTGCA TTCTCTGCTG CATACACAGA
    ACTTGAGTCG GCACTTTCTG GATTGAATGT GCTTATTGAG ACATACTTCG
    CTGACATTCC TGCTGAATCA TACAAGACCC TCACATCCCT GAACAGCGTG
    ACTGCTTATG GTTTTGACCT TATCCGTGGA GCCAAGACTC TTGACCTTAT
    CAAGAGTGCT GGTTTCCCCT CTGGAAAGTA CCTCTTTGCC GGTGTTGTGG
    ATGGACGCAA CATCTGGGCT GATGATCTCG CTGCATCTCT CACTACCCTT
    GAGTCTCTTG AGGCTATTGT TGGAAAGGAC AAGCTTGTGG TCTCGACTTC
    CTGCTCACTC ATGCACACCG CTGTGGATCT TGTAAATGAG ACCAAGCTCG
    ATAGCGAGAT TAAGTCATGG CTCGCTTTTG CTGCCCAAAA GGTGGTTGAG
    GTGAATGCCC TTGCTAAGGC ATTGGCTGGA CAGAAGGATG AGGCTTACTT
    TGCAGCAAAC GCTGCTGCTC AGGCCTCCAG GAGGTCATCA CCTCGTGTGA
    CAAACGAGGA AGTCCAAAAG GCTGCTGCTG CTCTGAAGGG GTCTGACCAC
    CGCCGTGCTA CCAATGTTAG CGCTAGACTG GACGCACAGC AGAAGAAGCT
    CAACCTTCCA GTCCTTCCTA CAACCACAAT TGGTTCATTC CCACAGACTG
    TGGAGCTCAG GAGAGTCCGC CGTGAGTACA AGGCAAAAAA GATCTCTGAG
    GAGGAGTACA TCAGTGCCAT CAAGGAGGAA ATCAGCAAGG TTGTTAAGAT
    CCAGGAAGAG CTTGACATCG ATGTCCTTGT TCACGGCGAG CCTGAGAGAA
    ACGATATGGT TGAGTACTTC GGTGAGCAGC TTTCTGGTTT TGCATTCACT
    GCCAACGGAT GGGTGCAATC TTATGGATCA CGGTGTGTCA AGCCACCAAT
    TATCTATGGT GATGTGAGCC GCCCCAACCC CATGACTGTG TTCTGGTCCA
    AGTTGGCGCA GAGCATGACC TCTCGCCCCA TGAAGGGAAT GTTGACTGGT
    CCCGTCACAA TCCTTAACTG GTCTTTTGTC AGGAATGACC AGCCGAGGTT
    TGAGACATGC TACCAGATTG CTCTTGCCAT CAAGAAGGAG GTCGAGGACC
    TTGAGGCTGG TGGTATTCAG GTCATCCAAA TCGATGAGGC TGCTTTGAGA
    GAAGGTCTGC CACTCCGCAA GGCGGAGCAT GCTTTCTACT TGGACTGGGC
    TGTTCACTCC TTCAGAATCA CCAACTGCGG TGTTCAGGAC ACCACCCAGA
    TCCACACCCA CATGTGCTAC TCTAACTTCA ACGACATCAT CCACTCCATC
    ATCAACATGG ACGCTGATGT GATCACCATC GAGAACTCCC GGTCCGACGA
    GAAGCTGCTC TCCGTCTTCC GCGAGGGTGT GAAGTATGGT GCTGGCATTG
    GCCCTGGTGT CTATGACATC CACTCCCCAA GGATCCCGTC CACAGAGGAG
    ATTGCGGACC GCGTCAACAA GATGCTCGCG GTGCTCGACA CTAACATTCT
    CTGGGTGAAC CCTGACTGCG GTCTCAAGAC CCGCAAGTAC AACGAGGTCA
    AGCCCGCCCT TACCAACATG GTTTCGGCCG CCAAGCTCAT CCGCACCCAG
    CTCGCCAGCG CGAAGTGAGG ATATCCATAG CTGCAAGTTC CCTTCGGTTG
    CGAGGACGAT GCCGTCATAG CCATCTGTTT TTGAATAATC TGGGTCCAGT
    GGATCCAATT GTCTGTGGTT AGGTTTAGTC AGTCTCGGTG GGAAGATCCC
    TCATACCCGT TTTACTTTTG AATCAATTTG GTGGTTTTTG AGGCAGTTTG
    TCGGTGTATT TGTATTGTGT GTAATCTGAG TGGGAATCAG CAGTGTTTCA
    TCTGCATCTG AATCGTTGCG GATCAAATTA CAAAATTTTC

    Gene models with high sequence identity

    1. AT5G17920.2 [+] show detail - Cobalamin-independent synthase family protein
      E-value: 0; Score: 999.99

     

    InterPro Scan Digest

    Program Description E-value
    HMMTigr 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase 0
    HMMPfam Methionine synthase, vitamin-B12 independent 1.3e-148
    HMMPfam Cobalamin (vitamin B12)-independent methionine synthase MetE, N-terminal 1.9e-117
    superfamily UROD/MetE-like 3.4e-129
    superfamily UROD/MetE-like 2.6e-125
    HMMPIR 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase 0
    HAMAP 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase 36.046
    Gene3D no description 4.7e-66
    Gene3D no description 3.4e-104

    See the detailed result >

    AT5G17920.2

    Model type
    Protein coding
    Short Description
    Cobalamin-independent synthase family protein
    Curator Summary
    Encodes a cytosolic cobalamin-independent methionine synthase, involved in methionine regeneration via the activated methyl cycle (SAM cycle). The protein undergoes thiolation following treatment with the oxidant tert-butylhydroperoxide.
    Computational Description
    COBALAMIN-INDEPENDENT METHIONINE SYNTHASE (ATCIMS); FUNCTIONS IN: 5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity, methionine synthase activity; INVOLVED IN: response to zinc ion, response to salt stress, methionine biosynthetic process; LOCATED IN: in 6 components; EXPRESSED IN: 9 plant structures; EXPRESSED DURING: seedling growth, seed development stages; CONTAINS InterPro DOMAIN/s: Cobalamin (vitamin B12)-independent methionine synthase MetE, N-terminal (InterPro:IPR013215), Methionine synthase, vitamin-B12 independent (InterPro:IPR002629), 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase (InterPro:IPR006276); BEST Arabidopsis thaliana protein match is: methionine synthase 2 (TAIR:AT3G03780.3); Has 4442 Blast hits to 4434 proteins in 1682 species: Archae - 183; Bacteria - 3246; Metazoa - 14; Fungi - 206; Plants - 251; Viruses - 2; Other Eukaryotes - 540 (source: NCBI BLink).
    Link
    InterPro Scan - TAIR