K03819

RIKEN rice full-length cDNA overexpressed Arabidopsis lines

Original: K03819

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)
  • increased width (PATO:0000600)
    (Rosette leaf::Shape::wide)
stem (PO:0009047)
  • present in greater numbers in organism (PATO:0000470)
    (Stem::Number::many)

Invisible phenotypes

Specific phenotypes were NOT observed.

Original: K03819

Determination of introduced cDNA(s)

  • J023041B11 - Rice Full-length cDNAs - Original: J023041B11

    full reading [+] show sequence

    Nucleotide sequence: J023041B11 - full reading
    GGGACTCTCC CGATCCTTCC CCAACTCGGC GTCGCGCCGC CTCAACCGAA 
    GCAAGGAGCA AAGCGGGGAT TCAGAACGGG AAGGAGAAGG TCCGGTTCGT
    CCGCTCTCGA GCTCAAGTGT CAGTTGAAGT GTTTTGAAAG TCATGGCGGA
    GCATTTGGCT TCAATATTTG GGACTGAGAA GGATAGGGTT AACTGCCCCT
    TTTACTTCAA GATTGGGGCT TGCCGTCATG GGGATCGTTG CTCCCGTCTG
    CACAACAGGC CAACTGTGTC GCCGACAATT GTGCTTGCTA ACATGTATCA
    GCGCCCTGAT ATGATCACAC CAGGAGTCGA TGCTCAAGGC CAACCTATTG
    ATCCTGAAAA GATGCAGGAG CACTTTGAGG ATTTCTATGA GGATATCTAT
    GAGGAGCTGA GCAAGTTTGG TGAGGTTGAG ACCCTCAATG TCTGTGATAA
    CCTTGCTGAC CACATGATAG GCAATGTGTA TGTCCAGTTC AGGGAGGAAG
    AACAGGCAGT CGCTGCGCAT AATGCCCTTC AAGGTCGCTT CTACTCAGGG
    CGCCCAATAA TTGTTGAGTA TTCCCCTGTG ACTGATTTCC GTGAGGCGAC
    CTGTAGGCAG TTTGAGGAGA ACAGCTGCAA CCGTGGGGGC TACTGTAATT
    TTATGCATGT AAAGCAGATT GGCAGGGAGC TCAGGAGGAA GCTTTATGGG
    GGGCGATCCA GGAGGAGCCA TGGGAGAAGC CGCAGCCCAA GCCCACGCCA
    CAGGAGGGGC AATCGTGACC GTGATGATTT CCGCCGTGAA CGTGATGGTT
    ATCGTGGTGG TGGTGATGGT TACCGTGGCG GCGGCGGTGG CGGTGGTGGT
    GACGGTTACC GCGGCGGTGA TAGTTACCGT GGTGGTGGTG GTGGTGGACG
    CAGGGGTGGG GGCAGCAGGT ATGACAGGTA TGATGATGGA GGAAGGCGCA
    GGCATGGCAG CCCCCCAAGG CGTGCAAGGA GCCCAGTCAG GGAAAGCAGC
    GAGGAACGCA GGGCGAAGAT TGAACAGTGG AACCGTGAAC GGGAGGAAAA
    GCCTTGAACG AAAGCAGTGA TATCTCTATG GATGGCCGGT TCATGCCTTC
    ATGGCAATCA CTATCCGCTG GAGTCGTGGT GTGCTGCTAT GTTCTAAGTG
    GATATTTAGT GTGTGTCGTT TGGTACTCAT GCTTGGCTGA GTAACCCTTT
    TAAATGCAGG ATTCTGGATT CTATTTACAT TGTGTTTCGT TTGACGTGTA
    AACCGCCGTT TGTTTTTAAA TATGCAATAT TGGATCTTTT GTCAGTCTAT
    TATCCTGTC

    Gene models with high sequence identity

    1. AT5G42820.2 [+] show detail - Zinc finger C-x8-C-x5-C-x3-H type family protein
      E-value: 4e-97; Score: 352.00

     

    InterPro Scan Digest

    Program Description E-value
    Gene3D Nucleotide-binding, alpha-beta plait 5.4e-38
    ProfileScan RNA recognition motif, RNP-1 11.145
    ProfileScan Zinc finger, CCCH-type 13.065
    ProfileScan Zinc finger, CCCH-type 11.892
    FPrintScan U2 auxiliary factor small subunit 3.4e-64
    FPrintScan U2 auxiliary factor small subunit 3.4e-64
    FPrintScan U2 auxiliary factor small subunit 3.4e-64
    FPrintScan U2 auxiliary factor small subunit 3.4e-64
    FPrintScan U2 auxiliary factor small subunit 3.4e-64
    FPrintScan U2 auxiliary factor small subunit 3.4e-64
    HMMPanther U2 auxiliary factor small subunit 5.6e-120
    HMMSmart Zinc finger, CCCH-type 0.0068
    HMMSmart Zinc finger, CCCH-type 0.014
    superfamily RNA-binding domain, RBD 8.3e-25
    superfamily CCCH zinc finger 0.00056
    superfamily CCCH zinc finger 0.0031
    HMMPfam Zinc finger, CCCH-type 3.6e-07
    HMMPfam Zinc finger, CCCH-type 0.00021
    HMMPfam RNA recognition motif, RNP-1 1.3e-05

    See the detailed result >

    AT5G42820.2

    Model type
    Protein coding
    Short Description
    Zinc finger C-x8-C-x5-C-x3-H type family protein
    Curator Summary
    U2 auxiliary factor small subunit. The atU2AF35b protein and its homolog, atU2AF35a, contain most of the conserved domains of hsU2AF35, including the psiRRM, one RS domain, two zinc fingers, and the two regions for interacting with U2AF large subunit. Both proteins lack the stretch of glycines present in human U2AF35. The sequences are overall 83% identical, and each Arabidopsis homolog shows approximately 70% similarity to hsU2AF35. U2AF(35) homologs were also identified from maize, rice and other plants with large-scale EST projects. Both genes are expressed in all major tissues, with atU2AF(35)a expressed at a higher level than atU2AF(35)b in most tissues. The expression patterns were different in roots: atU2AF(35)b expressed strongly in whole young roots and root tips and atU2AF(35)a limited to root vascular regions.
    Computational Description
    U2AF35B; FUNCTIONS IN: RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding; INVOLVED IN: photoperiodism, flowering; LOCATED IN: nucleus; EXPRESSED IN: 28 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, CCCH-type (InterPro:IPR000571), RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), U2 auxiliary factor small subunit (InterPro:IPR009145); BEST Arabidopsis thaliana protein match is: U2 snRNP auxiliary factor small subunit, putative (TAIR:AT1G27650.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
    Link
    InterPro Scan - TAIR
  • J023099J20 - Rice Full-length cDNAs - Original: J023099J20

    full reading [+] show sequence

    Nucleotide sequence: J023099J20 - full reading
    GGCTCGATCA ATTCATCTCA TCGTCCATGG CGCCCAAGGT GGCGGTCACG 
    GAGGCGACGG GGCGGCAGGC GGCGTCGTTC GTGCTCGGCT GCGTGGCCAC
    GCTCACCGTC ATGCTGCTCT TCCAGTACCA GGCGCCGCCG GACTACGGCC
    GCGCCGCCAG GTCGCCGGTG CAGTTCTCCA CCTCCAGAGA CCAGCTGCTG
    CTGCACTGCG GCGGCAATGG AACGGCGCCG CCGCCGCCGG TGATCGCACG
    TGGCGGCGAG GAGGCTAACA TCACCGGCAA GCCTCCGACG ACTGCTACTG
    CTGTCGCCGA GGAGCAGCCG CCAACCAAGC CTCCTGCGAC CTTTACTGCA
    TCTTCACCAA CTCATCATAT TCCAGCAACC AGTACAGATC TTGAAGAAGA
    GGGCGGCGAG TTCCGGGGGT TGGCGGCGGC GGTGGCGCGG GCGGCGACGG
    ATGACCGGAC GGTGATCATC ACGTGCGTGA ACCACGCGTT CGCGGCGCCC
    GACTCGCTCC TGGACATCTT CCTCCAGGGC TTCCGCGTCG GCGACGGCAC
    GCCGGAGCTC CTCCGCCACG TCCTCGTCGT CGCCATGGAT CCCACCGCGC
    TCACCCGGTG CCGCGCCGTC CACCCCCACT GCTACCTCTA CACCATGCCC
    GGCCTCGACG TCGACTTCAC CTCCGAGAAG TTCTTCGCCT CCAAGGACTA
    CCTCGAGCTC GTCTGGAGCA AGCTCAAGCT CCAGCGCCGA ATTCTCCAGC
    TCGGCTACAA CTTCCTCTTC ACGGACGTTG ACATTGTGTG GCTGAGGAAT
    CCGTTCAAGC ACGTGGCGGT GTACGCGGAC ATGGCGATCT CGAGCGACGT
    GTTCTTCGGT GACCCGGACA ACATCGACAA CTTCCCAAAC ACGGGCTTCT
    TCTACGTGAA GCCGAGCGCG AGGACGATCG CCATGACCAA GGAGTGGCAC
    GAGGCGAGGA GCTCGCACCC GGGGCTCAAC GAGCAGCCGG TGTTCAACCA
    CATCAAGAAG AAGCTGGTGA AGAAGCTGAA GCTCAAGGTT CAGTACCTGG
    ACACGGCCTA CATCGGCGGA TTCTGCAGCT ACGGCAAGGA TCTGAGCAAG
    ATCTGCACCA TGCACGCCAA CTGCTGCATC GGCCTCCAAT CCAAGATCAG
    TGATCTCAAG GGTGTTCTTG CTGACTGGAA GAACTACACC AGGTTGCCAC
    CCTGGGCAAA GCCCAATGCC AGGTGGACTG TGCCTGGTAA ATGCATCCAT
    TGATTTTGAT TGTCGATCGG GCAGTATCTG GTGTTGTAGG CTACGTACAG
    TCAGGAAGAT AGCTTTATTT GCACATGAAA GGGCGAATTT TGTTTTTTTT
    GGTTTGTTGT AGATTGATGG GTCGATTTCA AGTTATATTA CTGTATACCT
    GACGGCAGAC AAGTATACGC ATGATGGGCA AACTATATGA TATGATATGA
    TATGATAGTA CTTTAGATGT

    Gene models with high sequence identity

    1. AT4G19970.1 [+] show detail - CONTAINS InterPro DOMAIN/s: Nucleotide-diphospho-sugar transferase, predicted (InterPro:IPR005069...
      E-value: 1e-67; Score: 254.00

     

    InterPro Scan Digest

    Program Description E-value
    HMMPfam Nucleotid_trans 1.6e-64
    HMMPanther REGULATORY PROTEIN 2.1e-97
    HMMPanther PENTATRICOPEPTIDE REPEAT-CONTAINING PROTEIN 2.1e-97
    Coil coiled-coil 0
    Coil coiled-coil 0

    See the detailed result >

    AT4G19970.1

    Model type
    Protein coding
    Computational Description
    CONTAINS InterPro DOMAIN/s: Nucleotide-diphospho-sugar transferase, predicted (InterPro:IPR005069); BEST Arabidopsis thaliana protein match is: Nucleotide-diphospho-sugar transferase family protein (TAIR:AT5G44820.1); Has 801 Blast hits to 466 proteins in 35 species: Archae - 0; Bacteria - 0; Metazoa - 2; Fungi - 0; Plants - 750; Viruses - 0; Other Eukaryotes - 49 (source: NCBI BLink).
    Link
    InterPro Scan - TAIR