K24207

RIKEN rice full-length cDNA overexpressed Arabidopsis lines

Original: K24207

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: K24207

Determination of introduced cDNA(s)

  • J033071C19 - Rice Full-length cDNAs - Original: J033071C19

    full reading [+] show sequence

    Nucleotide sequence: J033071C19 - full reading 
    GGCTCGCCTT CCCCGGCTTT GACTCACAGA CTCCACGTCT CCACCCCGAA 
    TCTCACTTCC CGTCTCGCCC CCGCCCCCAA TCCTCACCGC CGCCGCCCGG 
    GCCAGCCATG GTGGGCGCCG ACGCCGAGTC CTCGGCGGTG GTCGACGCCG 
    GCGAGGGCCA CGGAGACCTG GCCCTCGATT CCTCCTCCGC TGCCTCCACC 
    GACCCTCTGC TCCACCCGCC GCCGTCCCCT TCCTCCACCC CCTCCTCTCC 
    CACCGCGATC GCCGACCACG ACGCGTTCAT CGAGGAAGAC GGCGAGGATG 
    ACTCCGCGCC CCACGTCCCA TCCGCTTCCG ACGAGGCGGC CCCGGAGTTC 
    GTCCAGATCA CCGTCTCCGA GCCTAAGAAG CACGCGGAGC CGGCCGCGGG 
    GGCAGCGGGG GTCATTCCTG GCTCCGGGAG CTACTTCTCC TACCTCATCA 
    CCACCAGGGC GGCCGACGGC GGCCTGTTCC GCGTGAGGCG GCGCTTCCGC 
    GACGTCGTCG CCCTCGCGGA CCGCCTCGCG GCGGCCTACC GGGGGCTCTT 
    CGTCCCGGCG CGACCAGACA AGAGCATCGT CGAGGGGCAG GTCATGCAGC 
    GGCATGAGTT CGTGAACCAG CGCTGCGCCG CGCTCCAGCG CTACCTCGGC 
    CGCCTTGCCG CGCACCCCAC CATCGGCCGC AGCGCCGAAC TCCATGACTT 
    CCTGACTGAG CCAAGCGGCA TTCCCACCTC CGCGGGCGAG TCACCCAGAT 
    CGGATCCCGC GTTGAGTGCT GCCATGTCCG CGGCCGCCGT TACCGCTCCA 
    ACGGCGCCTG CAAAGCCTGG GAGAGATATT TTTGGGATGT TTAAGGACCT 
    GAAGCAGACG GTGGCGAATG GATTGGTGGC AGTGAGGCCG CCTCCAGTGG 
    AGGAGGAAAC TGATGCAAAG TTCGTCATGC ACAAGGCCAA GCTGGAGTAC 
    TTCGAGCAGC ATCTCACGAC GGCATCTCAG CAGGTAGAGG CTCTTCTTAA 
    AGCTTATGAT GATCTTAAAG CAACTACAGG TCAACTGGGA ATGACATTCA 
    TTAAGCTGGC AAAGTTTGAA AAGGAGCAGG ATACATGTAA TTCTCAGAGA 
    AAAAGAGCTG TTGATATGAG CAATTTCGCA AATGCTGTTA TCAACATGAG 
    CAGATCACAG ACAAAACTAA ATGCTAAAAT TGAAATACAT CTGGGCACTA 
    TCTATGAATA CTTGGAGACA ATGACTTCTG TTCGTAATGC ATTTACTGAT 
    CGCGCAAATG CTTTGCTTCG TGTGCAAAGT CTGTCAGGAG ATTTATTTCT 
    CTTGCATACT CAGGCAGCAA AACTTGAGTC CGTATCATCC AGAGGAATGG 
    GCCAGGAAAG ATTAAGATAC CAAAAGATTG AAGAACTGAA AGAAACAATA 
    AGAAAAACAG AAGATGCAAA AGGCAATGCA CGCCAGGAAT ATGAGCTTAT 
    CAAGGAAAAC AACATGAATG AGATCATAAG GTTTAACAAA GAAAAACGCC 
    ATGGTTTGGT TGAGATGCTG AAAGGCTTTG TAAGAAATCA GGTTTCATAC 
    TCAGAGCATA TTTCTAGTAT ATGGACAAAG GTAGCAGAAG AAACCACAGG 
    ATATACAGGC AAGGGCAGCT GAAGTAGGAT GTAAATATGC ATGTGAATTT 
    TAGCCTTTTA TCTGCAGATC AACATCAGTT ACAGAATTCG AAATCGTCTT 
    ATAGCTCAAC ACAGTGGTAT AGAGTATAGA CTATAAACAG AGATGTCACA 
    CTTCCCTCCA TCCAAAGGGC GTCGGATCTG TGATTTTTCT GGAGATGGTA 
    TCTCCGGCTG TTTAGGCGTA TAGCAGAATT TTCTAGGAAA GAGAATCAAA 
    TGATCAGCAA ACCAACACAA CTGTTTTTTT TTCCCAGTCC TTTTTTTTCC 
    ACCCTGGGCT TTACAGTAAT GTAATGTTGA GTTTCTGTAC ACGAAACTAG 
    ATTAGCTGGA ATTTTCTGGT TCCTGAGAGA ACCACATACA TGAAGATTTC 
    TTTTTGGTCC C

    Gene models with high sequence identity

    1. AT5G07120.1 [+] show detail - sorting nexin 2B
      E-value: 1e-86; Score: 318.00

     

    InterPro Scan Digest

    Program Description E-value
    superfamily Phox-like 1.8e-24
    FPrintScan PRICHEXTENSN 0.00000000086
    FPrintScan PRICHEXTENSN 0.00000000086
    FPrintScan PRICHEXTENSN 0.00000000086
    FPrintScan PRICHEXTENSN 0.00000000086
    FPrintScan PRICHEXTENSN 0.00000000086
    FPrintScan PRICHEXTENSN 0.00000000086
    FPrintScan PRICHEXTENSN 0.00000000086
    HMMSmart Phox-like 0.00000000039
    HMMPanther SORTING NEXIN-RELATED 4.8e-107
    HMMPanther SORTING NEXIN 4.8e-107
    Gene3D Phox-like 0.00000000000001
    Coil coiled-coil 0
    Coil coiled-coil 0
    HMMPfam Vps5 C-terminal 1.3e-19
    HMMPfam Phox-like 0.000000000000013
    ProfileScan Phox-like 13.298

    See the detailed result >

    AT5G07120.1

    Model type
    Protein coding
    Short Description
    sorting nexin 2B
    Curator Summary
    Encodes sorting nexin SNX2b. SNX2b is peripherally associated with membranes. Involved in vesicular trafficking from endosomes to the vacuole.
    Computational Description
    sorting nexin 2B (SNX2b); FUNCTIONS IN: phospholipid binding; INVOLVED IN: vesicle-mediated transport, intracellular signaling pathway; LOCATED IN: membrane; EXPRESSED IN: cultured cell; CONTAINS InterPro DOMAIN/s: Vps5 C-terminal (InterPro:IPR015404), Phox-like (InterPro:IPR001683); BEST Arabidopsis thaliana protein match is: sorting nexin 2A (TAIR:AT5G58440.1); Has 2399 Blast hits to 2386 proteins in 279 species: Archae - 13; Bacteria - 100; Metazoa - 1366; Fungi - 555; Plants - 146; Viruses - 0; Other Eukaryotes - 219 (source: NCBI BLink).
    Link
    InterPro Scan - TAIR