F16001

RIKEN Arabidopsis full-length cDNA overexpressed Arabidopsis lines

Original: F16001

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)
  • abnormal (PATO:0000460)
    (Rosette leaf::Others)
  • increased width (PATO:0000600)
    (Rosette leaf::Shape::wide)
stem (PO:0009047)
  • decreased thickness (PATO:0000592)
    (Stem::Shape::thin)
T2  
whole plant (PO:0000003)
  • decreased height (PATO:0000569)
    (Adult plant::Plant height::short)
cauline leaf (PO:0000013)
  • decreased size (PATO:0000587)
    (Cauline leaf::Shape::small)
  • present in fewer numbers in organism (PATO:0001997)
    (Cauline leaf::Number::few)
rosette leaf (PO:0000014)
  • decreased size (PATO:0000587)
    (Rosette leaf::Shape::small)
  • increased width (PATO:0000600)
    (Rosette leaf::Shape::wide)
whole plant flowering stage (PO:0007016)
  • premature (PATO:0000694)
    (Adult plant::Flowering::early)
sporophyte vegetative stage (PO:0007134)
  • increased speed (PATO:0000303)
    (Adult plant::Growth::fast)
stem (PO:0009047)
  • decreased thickness (PATO:0000592)
    (Stem::Shape::thin)

Invisible phenotypes

Specific phenotypes were NOT observed.

Original: F16001

Determination of introduced cDNA(s)

  • RAFL06-73-D20 - RIKEN Arabidopsis Full-length cDNAs - Original: RAFL06-73-D20 - Resource: pda03431

    full reading [+] show sequence

    Nucleotide sequence: RAFL06-73-D20 - full reading
    GGATCAAGTT CTCAATTTCT CTCCGTTATC TCAATCGCGA CCAAAGATCT 
    CTTCGATCAA AACCCTAGCT CTAAATTCCC CCAAATCTGA TTCTTCTCCT
    CCGATAAGCT TTTGTTGAAT TCACAAAGCA GCGTAAATGG TGTTGGCGGA
    GCTAGGCGGG CGGATTACCC GCGCGATACA GCAGATGAGC AATGTGACAA
    TTATCGATGA GAAGGCTTTG AATGAATGCT TGAACGAGAT CACTCGTGCT
    TTGCTTCAAT CCGATGTTTC ATTTCCCCTT GTGAAAGAGA TGCAGAGTAA
    TATTAAGAAA ATCGTCAATC TTGAAGATCT AGCAGCTGGT CACAACAAGC
    GCCGGATCAT TGAACAGGCT ATCTTTAGTG AACTCTGTAA GATGTTGGAT
    CCAGGGAAGC CTGCGTTTGC TCCTAAAAAA GCTAAAGCTA GTGTAGTTAT
    GTTTGTTGGA TTACAAGGTG CTGGAAAGAC GACAACTTGT ACTAAGTATG
    CTTATTATCA TCAGAAGAAA GGATACAAAC CAGCTTTGGT TTGTGCGGAT
    ACTTTCAGGG CTGGTGCGTT CGATCAGCTG AAACAGAATG CTACCAAGGC
    TAAGATCCCC TTTTATGGAA GCTACACGGA ATCCGATCCT GTGAAAATTG
    CTGTTGAGGG AGTAGATACG TTTAAGAAAG AAAACTGTGA TCTCATTATT
    GTTGATACCA GTGGTCGCCA TAAACAAGAA GCTTCTCTCT TTGAAGAAAT
    GCGTCAAGTT GCTGAAGCAA CGAAACCAGA TCTTGTTATA TTTGTTATGG
    ATAGCAGTAT TGGTCAAGCT GCATTTGATC AAGCTCAAGC CTTTAAGCAG
    AGTGTTGCTG TTGGAGCTGT AATTATTACT AAGATGGACG GCCATGCCAA
    GGGTGGTGGG GCTCTTAGCG CTGTTGCAGC TACGAAAAGT CCTGTGATAT
    TTATCGGAAC AGGAGAGCAT ATGGATGAGT TTGAAGTGTT TGACGTCAAA
    CCATTTGTCA GCCGTCTCTT AGGAATGGGT GATTGGTCTG GATTCGTGGA
    TAAGCTACAA GAGGTAGTAC CTAAAGATCA ACAGCCTGAA CTTCTGGAAA
    AGCTCTCTCA GGGTAACTTT ACGTTGAGAA TTATGTACGA CCAGTTCCAG
    AACATACTGA ACATGGGTCC ACTTAAGGAG GTTTTCTCAA TGCTGCCTGG
    AATTAGTGCT GAAATGATGC CGAAAGGACA TGAGAAAGAA AGCCAGGCGA
    AGATAAAGCG GTACATGACA ATGATGGATT CTATGACAAA TGATGAACTG
    GACAGCTCAA ACCCAAAGGT GTTTAACGAG TCACGGATGA TGCGGATAGC
    AAGAGGGTCA GGGAGGCAAG TAAGAGAAGT GATGGAGATG TTGGAAGAGT
    ACAAGAGGCT AGCGAAGATA TGGAGCAAGA TGAAAGGACT CAAGATCCCA
    AAGAATGGAG ATATGAGTGC ACTCTCGAGA AACATGAACG CACAGCACAT
    GAGCAAGGTC CTCCCACCTC AGATGCTCAA GCAGATTGGC GGCATGGGCG
    GTCTGCAGAG TCTAATGAAG CAGATGGGTT CCGGCAAGGA CATGATGGGA
    ATGTTCGGTG GCGGAGACAA GTAGTATCTT TCTTCCTTCC TTTGCACACC
    AAAAACTAGA CATTCTTACG TTGTCATTAT TAGAGTTTTC CCCTTTGTAT
    TTGTAAAATA TTTGCAAATT TTCTCCAATT TTACAAAAAG AGATTTGGTA
    ACAAAATAAT GTCTAGGGTC CAGTCGTGGA CATTATATAT TGAAAACCAA
    AAAAAAATTT ATATC

    Gene models with high sequence identity

    1. AT1G48900.1 [+] show detail - Signal recognition particle, SRP54 subunit protein
      E-value: 0; Score: 99.94

     

    InterPro Scan Digest

    Program Description E-value
    HMMTigr Signal recognition particle, SRP54 subunit 0
    Gene3D Signal recognition particle, SRP54 subunit, helical bundle 1.6e-18
    Gene3D no description 1.4e-65
    Gene3D Signal recognition particle, SRP54 subunit, M-domain 1e-28
    HMMPfam Signal recognition particle, SRP54 subunit, GTPase 3.2e-76
    HMMPfam Signal recognition particle, SRP54 subunit, M-domain 3.2e-28
    HMMPfam Signal recognition particle, SRP54 subunit, helical bundle 4.2e-13
    HMMSmart ATPase, AAA+ type, core 0.0048
    superfamily P-loop containing nucleoside triphosphate hyd 1.8e-67
    superfamily Signal recognition particle, SRP54 subunit, M-domain 2.3e-41
    superfamily Signal recognition particle, SRP54 subunit, helical bundle 1.3e-19
    HMMPanther SIGNAL RECOGNITION PARTICLE 54 KDA PROTEIN 1.9e-269
    HMMPanther GTPASE CONTAINING FAMILY OF SIGNAL RECOGNITIO 1.9e-269
    PatternScan Signal recognition particle, SRP54 subunit, GTPase 0

    See the detailed result >

    AT1G48900.1

    Model type
    Protein coding
    Short Description
    Signal recognition particle, SRP54 subunit protein
    Computational Description
    Signal recognition particle, SRP54 subunit protein; FUNCTIONS IN: 7S RNA binding, mRNA binding, nucleoside-triphosphatase activity, GTP binding, nucleotide binding; INVOLVED IN: SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition, SRP-dependent cotranslational protein targeting to membrane; LOCATED IN: signal recognition particle, signal recognition particle, endoplasmic reticulum targeting; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: ATPase, AAA+ type, core (InterPro:IPR003593), Signal recognition particle, SRP54 subunit, helical bundle (InterPro:IPR013822), Signal recognition particle, SRP54 subunit, M-domain (InterPro:IPR004125), Signal recognition particle, SRP54 subunit (InterPro:IPR006325), Signal recognition particle, SRP54 subunit, GTPase (InterPro:IPR000897); BEST Arabidopsis thaliana protein match is: Signal recognition particle, SRP54 subunit protein (TAIR:AT5G49500.1); Has 17579 Blast hits to 17572 proteins in 2934 species: Archae - 472; Bacteria - 10667; Metazoa - 363; Fungi - 296; Plants - 287; Viruses - 1; Other Eukaryotes - 5493 (source: NCBI BLink).
    Link
    InterPro Scan - TAIR
  • RAFL09-13-G15 - RIKEN Arabidopsis Full-length cDNAs - Original: RAFL09-13-G15 - Resource: pda01755

    full reading [+] show sequence

    Nucleotide sequence: RAFL09-13-G15 - full reading
    AGATTTTGGT TTTGTGTTGA GAACAACTCC AAAGAGACGA GAAGCAGCGA 
    ATCGTACGAG CAGAGAGATA TATGTTTCAT TACGTCGATG ATGGATTCTG
    CTTTATATCA TCCTCGAATC TTTTTCGCTC ACAGCTTCAT CAATGGCTTG
    TATAGTTCTC CTAGGTTTGC TAATACTTGC TGGAGATTGG TTAGTCGTTC
    AAGTTGGGAG ATCAAGGCTA GTGAGAATAG TGATCGCAAT GTGTTCGATG
    AAAATCCTGT TAGGAAAACC GACGGGTCGT TGTTTGATTC TGCTTCGTTT
    GAGACAGTTG ACGCGGAAAT CACGCCTGAG ACTGATGATT TCTTCGTGAG
    TGACGCAGAG GGTGATCCAG ATTGTCCTAC TCAAGGTTAT TCCTCTATTG
    AACTTGCTCT TCAAGCTCTA CGCAAAGGAA AGTTTGTGAT CGTTGTTGAC
    GATGAAACCG GAGATGTTGA AGGGAATCTG ATCATGGCTG CAACTCTTAC
    GAGTCCAAAA GACATAGCTT TTCTGATTAA GAATGGTTCA GGTATTGTCT
    CAGTTGGTAT GAAGAAAGAA AACCTTGAAA GATTAAGCCT TACACTTATG
    TCACCTGAAA TGGAAGACGA AGATTCCTCT GCTCCAACTT TCACCATCAC
    TGTGGATGCA AAATCTGGAA CATCAACTGG AGTATCAGCT TCAGACAGGG
    CGATGACGGT TCTTGCACTT TCGTCTCTCG ATGCTAAACC AGATGATTTC
    AGGAGGCCTG GTCATGTATT CCCTCTCAAG TACAGAGATG GTGGAGTTTT
    AAGGAGAGCT GGTCACACCG AAGCTTCAGT GGATCTAATG ATATTGGCTG
    GTTTACGTCC CCTCTCTGTT CTTTCAGCTA TTCTTGATCA AGAAGATGGG
    TCTATGGCTT CACTGCCGTA TATGAAAAAG CTTGCTACGG AACATGATAT
    CCCCATTGTA TCGTTGACTG ATTTAATCAG ATATCGAAGA AAGCGAGATA
    AGCTTGTTGA GAGAATCACA GTGTCTCGTT TGCCTACCAA ATGGGGTCTT
    TTCCAAGCTT ATTGTTATCG ATCTAAACTC GATGGAACCG AAAATATCGC
    CCTCGTTAAG GGAAACGTTG GAAATGGTGA GGACATTCTG GTGCGAGTGC
    ATTCAGAGTG CTTGACAGGA GACATTTTTG GCTCAGCACG GTGTGACTGT
    GGAAACCAAT TGGACTTAGC CATGGAGTTA ATCGAGAAAG AGGGAAGAGG
    AGTTGTTGTG TATCTCCGTG GCCACGAAGG AAGAGGCATT GGCCTTGGTC
    ACAAGCTTAG AGCTTATAAC TTGCAGGACG AAGGACACGA CACTGTTCAG
    GCCAATGTTG AACTTGGCCT ATCCATTGAT TCTCGTGAAT ACGGTATCGG
    TGCTCAGATG CTACGAGACA TAGGAGTGAG AACAATGAGA CTAATGACGA
    ATAACCCTGC CAAATTCACT GGTCTGAAAG GGTACGGACT CGCTGTAGTT
    GGCCGTGTGC CGGTGGTGAC ACCAATCACC AAGGAGAACA GAAGATATAT
    GGAGACCAAA CGCAAGAAGA TGGGTCACAT TTATATCTCT GATAACAACG
    ATCAGCCATT AGCTTGACCC AAAAGCTTTT GATAGAAACA CACACTTTTG
    AATTTTGTAT TTATAAATTG ATTCATTCTT ATGTAATCAT CAACCACAAT
    TACTTTTTTT CTGGAAGATT TGACATAAAA TCGAATTATA GTTTC

    Gene models with high sequence identity

    1. AT5G59750.1 [+] show detail - DHBP synthase RibB-like alpha/beta domain;GTP cyclohydrolase II
      E-value: 0; Score: 100.00

     

    InterPro Scan Digest

    Program Description E-value
    HMMTigr DHBP synthase RibB 7.2e-69
    HMMTigr GTP cyclohydrolase II 4.8e-95
    HAMAP GTP cyclohydrolase II 39.401
    HAMAP RIBBA_MF_01283 49.719
    HMMPfam GTP cyclohydrolase II 3e-74
    HMMPfam DHBP synthase RibB 3e-67
    Gene3D DHBP synthase RibB-like alpha/beta domain 3.2e-67
    HMMPanther GTP CYCLOHYDROLASE II 1.1e-169
    HMMPanther GTP CYCLOHYDROLASE II-RELATED 1.1e-169
    superfamily DHBP synthase RibB-like alpha/beta domain 3.6e-69

    See the detailed result >

    AT5G59750.1

    Model type
    Protein coding
    Short Description
    DHBP synthase RibB-like alpha/beta domain;GTP cyclohydrolase II
    Computational Description
    DHBP synthase RibB-like alpha/beta domain;GTP cyclohydrolase II; FUNCTIONS IN: 3,4-dihydroxy-2-butanone-4-phosphate synthase activity, GTP cyclohydrolase II activity; INVOLVED IN: riboflavin biosynthetic process; LOCATED IN: chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: GTP cyclohydrolase II (InterPro:IPR000926), DHBP synthase RibB (InterPro:IPR000422), DHBP synthase RibB-like alpha/beta domain (InterPro:IPR017945); BEST Arabidopsis thaliana protein match is: GTP cyclohydrolase II (TAIR:AT5G64300.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
    Link
    InterPro Scan - TAIR