F11549

RIKEN Arabidopsis full-length cDNA overexpressed Arabidopsis lines

Original: F11549

Phenotypes

Morphological phenotypes

Specific phenotypess were NOT observed.

Invisible phenotypes

Specific phenotypes were NOT observed.

Original: F11549

Determination of introduced cDNA(s)

  • RAFL06-76-N23 - RIKEN Arabidopsis Full-length cDNAs - Original: RAFL06-76-N23 - Resource: pda03651

    full reading [+] show sequence

    Nucleotide sequence: RAFL06-76-N23 - full reading 
    ACTCATCTTC TCAATTCCCA GATCATCTAC AATAGTCATT TCTCTTCGAT 
    TTCTTCAAAC TCTCATCAAA TCGTTTATCT GTTCTAAATT TCGAAGAAGA 
    CGATGAGTAC AGGCGCAGGA AGCGGAACAA CCAAAGGTGG CAGAGGAAAG 
    CCAAAGGCCA CCAAATCCGT CTCTCGATCA TCTAAAGCCG GTCTTCAATT 
    CCCCGTCGGA AGAATCGCTA GATTCCTCAA ATCCGGTAAA TACGCCGAGC 
    GTGTCGGTGC CGGAGCTCCG GTCTATCTCT CCGCTGTTCT CGAGTACCTC 
    GCCGCCGAGG TGTTGGAGCT GGCGGGAAAC GCAGCAAGGG ATAACAAGAA 
    GACACGTATA GTACCAAGAC ACATTCAGCT TGCAGTGAGG AACGATGAAG 
    AGTTAAGCAA ACTTCTGGGA AGTGTGACGA TTGCGAATGG AGGAGTTTTG 
    CCAAATATTC ATCAGACTCT TTTGCCATCC AAGGTTGGCA AGAACAAAGG 
    AGATATTGGA TCTGCTTCTC AGGAGTTCTG AGGTTCTTAG ACTTCTTAGT 
    TCAGTTCTCT TGTTTGGATT CGGAACTTGT AAAATAGACC CTGATGGTGT 
    TTTTTGGGGA TCAAATTAGG TTTTAAAGCT AAGTATATTT GGCTTTTGCC 
    TAAGTATGTT TAATTAGTGA ATGATATGAT ATTTCGT

    Gene models with high sequence identity

    1. AT1G08880.1 [+] show detail - Histone superfamily protein
      E-value: 0; Score: 100.00

     

    InterPro Scan Digest

    Program Description E-value
    FPrintScan Histone H2A 6e-53
    FPrintScan Histone H2A 6e-53
    FPrintScan Histone H2A 6e-53
    FPrintScan Histone H2A 6e-53
    FPrintScan Histone H2A 6e-53
    HMMPanther Histone H2A 2.6e-68
    HMMPfam Histone core 1.4e-26
    HMMSmart Histone H2A 2.7e-76
    Gene3D Histone-fold 2.8e-48
    superfamily Histone-fold 4e-43
    PatternScan Histone H2A 0

    See the detailed result >

    AT1G08880.1

    Model type
    Protein coding
    Short Description
    Histone superfamily protein
    Curator Summary
    Encodes HTA5, a histone H2A protein. H2AX is a meiosis-specific isoform of histone H2A. Upon DSB formation, rapid accumulation of phosphorylated H2AX (γ-H2AX) occurs around the break site. H2AX foci accumulate in early G2. Immunolocalization studies in spread preparations of wild-type meiocytes at G2/early leptotene revealed the accumulation of numerous rather diffuse γ-H2AX foci throughout the chromatin. However, their accumulation is not contemporaneous with that of AtSPO11-1. At 3 h post-S, no γ-H2AX foci are detected. During the 3- to 5-h window when AtSPO11-1 foci rapidly disappear, there is an equally swift accumulation of γ-H2AX to a maximum of >50 diffuse foci. The level of γH2AX then remains constant for a further 13 h before undergoing a gradual decrease to 10
    Computational Description
    H2AXA; FUNCTIONS IN: DNA binding; INVOLVED IN: nucleosome assembly; LOCATED IN: nucleus; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Histone H2A (InterPro:IPR002119), Histone-fold (InterPro:IPR009072), Histone core (InterPro:IPR007125); BEST Arabidopsis thaliana protein match is: gamma histone variant H2AX (TAIR:AT1G54690.1); Has 3916 Blast hits to 3911 proteins in 363 species: Archae - 0; Bacteria - 0; Metazoa - 2550; Fungi - 318; Plants - 612; Viruses - 4; Other Eukaryotes - 432 (source: NCBI BLink).
    Link
    InterPro Scan - TAIR