1. Home
  2. Full-length cDNAs
  3. RAFL06-76-N23

RAFL06-76-N23

RIKEN Arabidopsis Full-length cDNAs

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

Mutant lines with RAFL06-76-N23 introduced

  • F11549 - Specific phenotypes were NOT observed.

Mutant lines with disrupted or induced

2 mutant lines found