Arabidopsis small RNA Gene Analysis

The basic information for the gene you have selected is displayed below. The "small RNA Information" section sums the reads that map to either strand of the gene of interest, indicating the total (normalized) read abundance, the count of distinct (different) sequences, and providing links to a downloadable file with that information, and web pages that provide detailed information on the complete set of individual sequences derived from the gene. View a legend that explains the icons and colors in the image below. Adjust libraries/reads or change display options on the control panel. In the control panel, you can show a special "phasing analysis" for small RNAs in this region.



CGCTTATATCATTAGGGACTTAAACGTGGAAGAAACAATGAAATTGGAAAAACGTGGAAGAAATAAGATCTAACAACTATGAACAATAAGATCTAACAACTATGAAAAATCCGAATCTTAAACTTTGATCAATCCGAATCTTAAACTTTGATATCCGAATCTTAAACTTTGATTTCGGATTTGAAAAGACATAAGTCTCGAGAGACGATTGTTGTTAGAGACGATTGTTGTTCGATCGATTGTTGTTCGATCTTCTCGGTTGTTCGATCTTCTCGGTAGCTTCGAACAACAATCGTCTCTCGGTAGCTTTGTGACAACAGAGAGAAGATCGAACAACAATCGTTTGTGACAACAGAATCTAGGTTTGTGACAACAGAATCTAGGGCAACAGAATCTAGGGTTTCGTTGTTGTCACAAAGCTACCGAGCTAGATTCTGTTGTCACAAAAAACCCTAGATTCTGTTGTCACTTTATGAACCAAGACTTTAATTTCCTGCTAGAAACAACAACTCCTGCTAGAAACAACAACTGTAACAACAACTGTACATCACCATACAGTTGTTGTTTCTAGCAGCATAAATATTCTCACCGTTCGCTATGAGATTGAGAAAGAGGCAAGAGAAGCGAACGGTGAGAATGAGAGAAGCGAACGGTGAGTAGATGAGAGAAGCGAACGGTTTAGATGAGAGAAGCGAACGGTTAGATGAGAGAAGCGAACGGTAGAAGCTACAGAGAGAACATTAGAGAGAGAGAGAGAAGCAAGATAGAGAGAGAGAGAGAACGACAGAAAGGAAATGAGTGACGACAGAAAGGAAATGAGTGATAAAGGAAATGAGTGATTTGTTATGAGTGATTTGTTTTTGGAATGAGTGATTTGTTTTTGGATTCTTTAACCTTTTTGATCATTTTTTGATCATGCGGGTTTGACTGACAAAAGAGTCTCTTACAGAGAAAAAGAGTCTCTTACAGAGATCAAAGAGTCTCTTACAGAGAAAGAGTCTCTTACAGAGAAAAGAGTCTCTTACAGAGATCAAAGAGTCTCTTACAGAGATCTAAAGAGTCTCTTACAGAGATCTTTCTTACAGAGATCTTTGGCATCTTACAGAGATCTTTGGCATTCTTACAGAGATCTTTGGCATTCTTACAGAGATCTTTGGCCTTACAGAGATCTTTGGCACTTACAGAGATCTTTGGCATCTTACAGAGATCTTTGGCATTCTTACAGAGATCTTTGGCATTCTTACAGAGATCTTTGGCATTTACAGAGATCTTTGGCATTTACAGAGATCTTTGGCATTCTACAGAGATCTTTGGCATTCTGTCCAGAGATCTTTGGCATTCTGAGAGATCTTTGGCATTCTGTAGAGATCTTTGGCATTCTGTCAGAGATCTTTGGCATTCTGTCCAGAGATCTTTGGCATTCTGTCCAAGAGATCTTTGGCATTCTGTCCACAGAGATCTTTGGCATTCTGTCCACCAGAGATCTTTGGCATTCTGTCCACCTGAGATCTTTGGCATTCTGTGAGATCTTTGGCATTCTGTCGAGATCTTTGGCATTCTGTCCGAGATCTTTGGCATTCTGTCCAGAGATCTTTGGCATTCTGTCCACGAGATCTTTGGCATTCTGTCCACCGAGATCTTTGGCATTCTGTCCACCTGAGATCTTTGGCATTCTGTCCACCTCAGATCTTTGGCATTCTGTCCAGATCTTTGGCATTCTGTCCAAGATCTTTGGCATTCTGTCCACCAGATCTTTGGCATTCTGTCCACCTAGATCTTTGGCATTCTGTCCACCTCGATCTTTGGCATTCTGTCCACCGATCTTTGGCATTCTGTCCACCTGATCTTTGGCATTCTGTCCACCTCCATCTTTGGCATTCTGTCCAATCTTTGGCATTCTGTCCACATCTTTGGCATTCTGTCCACCATCTTTGGCATTCTGTCCACCTATCTTTGGCATTCTGTCCACCTCATCTTTGGCATTCTGTCCACCTCCATCTTTGGCATTCTGTCCACCTCCTTCTTTGGCATTCTGTCCACTCTTTGGCATTCTGTCCACCTCTTTGGCATTCTGTCCACCTTCTTTGGCATTCTGTCCACCTCTCTTTGGCATTCTGTCCACCTCCCTTTGGCATTCTGTCCACCCTTTGGCATTCTGTCCACCTCTTTGGCATTCTGTCCACCTCCTTTGGCATTCTGTCCACCTCCCTTTGGCATTCTGTCCACCTCCTCTTTGGCATTCTGTCCACCTCCTCTTTGGCATTCTGTCCACCTTTGGCATTCTGTCCACCTTTTGGCATTCTGTCCACCTCTTTGGCATTCTGTCCACCTCCTTTGGCATTCTGTCCACCTCCTTTTGGCATTCTGTCCACCTCCTCTTTGGCATTCTGTCCACCTCCTCTTTTGGCATTCTGTCCACCTCCTCTCTTGGCATTCTGTCCACCTTTGGCATTCTGTCCACCTCTTGGCATTCTGTCCACCTCCTTGGCATTCTGTCCACCTCCTTTGGCATTCTGTCCACCTCCTCTTGGCATTCTGTCCACCTCCTCTTTGGCATTCTGTCCACCTCCTCTCTTGGCATTCTGTCCACCTCCTCTCTTTGGCATTCTGTCCACCTCCTCTCTCTGGCATTCTGTCCACCTCTGGCATTCTGTCCACCTCCTGGCATTCTGTCCACCTCCTTGGCATTCTGTCCACCTCCTCTGGCATTCTGTCCACCTCCTCTGGCATTCTGTCCACCTCCGGCATTCTGTCCACCTCCTCACAGAATGCCAAAGATCTACAGAATGCCAAAGATCTCTGAGGTGGACAGAATGCCAAAGAGAGGTGGACAGAATGCCAAGGAGGTGGACAGAATGCCAAAGGAGGTGGACAGAATGCCAAAGATAAGTGTACGTATCTACGGTGTAAGTGTACGTATCTACGGTGTGGGTGTGTTTCGTAAGAGGAGGGTGTGTTTCGTAAGAGGAGGTGGGCATACTGCGTGTTTCGTAAGAGGAGGTGGGCATACTGCCAATAAGAGGAGGTGGGCATACTGCCAAGAGGAGGTGGGCATACTGCCAGAGGAGGTGGGCATACTGCCGAGGAGGTGGGCATACTGCCAAGAGGAGGTGGGCATACTGCCAATGAGGAGGTGGGCATACTGCCAATAGAGGAGGTGGGCATACTGCCAATAGAGGAGGTGGGCATACTGCCAAAGGAGGTGGGCATACTGCCAATAGGAGGTGGGCATACTGCCAATAAGGAGGTGGGCATACTGCCAATAGAGGAGGTGGGCATACTGCCAATAGAGGAGGTGGGCATACTGCCAAGGAGGTGGGCATACTGCCAATGGAGGTGGGCATACTGCCAATAGAGGTGGGCATACTGCCAATAAGGTGGGCATACTGCCAATAGGTGGGCATACTGCCAATAAGGTGGGCATACTGCCAATAGAGGTGGGCATACTGCCAATAGAAGGTGGGCATACTGCCAATAGAGAGGTGGGCATACTGCCAATAGAGATCTGTGGTGGGCATACTGCCAATAGGTGGGCATACTGCCAATAGGGTGGGCATACTGCCAATAGAGGTGGGCATACTGCCAATAGTGGGCATACTGCCAATAGAGTGGGCATACTGCCAATAGAGAGTGGGCATACTGCCAATAGAGATGTGGGCATACTGCCAATAGAGATCGTGGGCATACTGCCAATAGAGATCTGTGGGCATACTGCCAATAGAGATCTGTTGGGCATACTGCCAATAGAGATTGGGCATACTGCCAATAGAGATCTGGGCATACTGCCAATAGAGATCTGTTGCATACTGCCAATAGAGATCTGATACTGCCAATAGAGATCTGTTACTGCCAATAGAGATCTGTTCTGCCAATAGAGATCTGTTAGGGTGCCAATAGAGATCTGTTAGGGTGCCAATAGAGATCTGTTAGGGTTGCCAATAGAGATCTGTTAGGGTTTTTGGCAGTATGCCCACCTCCTAGAGATCTGTTAGGGTTTCTTTGAGAGATCTGTTAGGGTTTCTTTAGAGATCTGTTAGGGTTTCTTTGGAGATCTGTTAGGGTTTCTTTGAGATCTGTTAGGGTTTCTAGATCTGTTAGGGTTTCTTAGATCTGTTAGGGTTTCTTTAGATCTGTTAGGGTTTCTTTGAGATCTGTTAGGGTTTCTTTGTGATCTGTTAGGGTTTCTTTGATCTGTTAGGGTTTCTTTGGATCTGTTAGGGTTTCTTTGTATCTGTTAGGGTTTCTTTGTATCTGTTAGGGTTTCTTTGTAATCTGTTAGGGTTTCTTTGTAATCTGTTAGGGTTTCTTTGTAGATCTCTATTGGCAGTATGCCCAACAGATCTCTATTGGCAGTAAACCCTAACAGATCTCTATTGGCAATTATCTCGAAACTTTAACCTTTGTCTCCTTTGATCTATCTGTCAAACTTTGATCTTCAGATAGATCAAAGGAGACAGCAAGATCAAGACTAATCCGATTGAAATTGCAACGGCGTTGACAAATAGTGGTGGCGTTTGAGACGTCTTTCCTAGATGATGTAAACGAAAGAGGACCCATTACTCCCTACTACAAGGTACAGGTAGATTGATACAAGGTACAGGTAGATTGAACAAGGTACAGGTAGATTGAAGTCATAGTGTAGGGAGTAATGGGTCCTCTCAGGTAGATTGAAGTCATAGGATAAGCGCAAGGACAACAATACTTAGCATTGTTACGATTATTGGATTCTAACTAAGAGCTTGGCAAAAGTCGTATCGTAACAATGCTAAGAGCTTTTAGAATCCAATAATCGTAACTAGTAACCTCATCATTGGAAGTTCTTATGTTCGGTCAATTCACTClick to see list of reads 28,568,150 - 28,568,359 28,568,356 - 28,568,565 28,568,419 - 28,568,628 28,568,424 - 28,568,633 28,568,436 - 28,568,645 28,568,456 - 28,568,665 28,568,463 - 28,568,672 28,568,536 - 28,568,745 28,568,538 - 28,568,747 28,568,547 - 28,568,756 28,568,734 - 28,568,943 28,568,740 - 28,568,949 28,568,747 - 28,568,956 28,568,799 - 28,569,008 28,568,807 - 28,569,016 28,568,808 - 28,569,017 28,568,810 - 28,569,019 28,568,813 - 28,569,022 28,568,814 - 28,569,023 28,568,815 - 28,569,024 28,568,817 - 28,569,026 28,568,818 - 28,569,027 28,568,819 - 28,569,028 28,568,820 - 28,569,029 28,568,821 - 28,569,030 28,568,822 - 28,569,031 28,568,862 - 28,569,071 28,568,879 - 28,569,088 28,568,894 - 28,569,103 28,568,895 - 28,569,104 28,568,896 - 28,569,105 28,568,897 - 28,569,106 28,568,905 - 28,569,114 28,568,906 - 28,569,115 28,568,918 - 28,569,127 28,568,919 - 28,569,128 28,568,920 - 28,569,129 28,569,237 - 28,569,446 28,569,314 - 28,569,523 28,569,323 - 28,569,532 28,570,238 - 28,570,447 28,569,974 - 28,569,765 28,569,948 - 28,569,739 28,569,749 - 28,569,540 28,568,926 - 28,568,717 28,568,841 - 28,568,632 28,568,838 - 28,568,629 28,568,832 - 28,568,623 28,568,675 - 28,568,466 28,568,658 - 28,568,449 28,568,638 - 28,568,429 28,568,637 - 28,568,428 28,568,631 - 28,568,422 28,568,607 - 28,568,398 28,568,559 - 28,568,350 28,568,533 - 28,568,324 28,568,467 - 28,568,258 28,568,449 - 28,568,240 28,568,345 - 28,568,136 28,568,301 - 28,568,092 28,568,294 - 28,568,085 Click to see list of phasing windowsClick to see list of phasing windows
Gene map
Phasing analysis map
Phasing Analysis (above): Each dot represents a "window" of ten cycles of small RNAs of length 21 nt (where 21 is set in the control panel under Select phasing analysis options), with the score for the degree of phasing indicated on the Y axis (scores calculated approximately as described by Howell et al., 2007). The red dot is the highest scoring window and has the best score in this region. Other colored dots are windows which are in phase with the highest scoring window -- exactly-in-phase windows appear as filled dots, and almost-in-phase (-1/+1) windows as hollow dots. Only those reads corresponding to the featured length (the default length is 21 nt) are considered.

Gene Chr Strand Gene Type 5' End 3' End Model # of Splice Variants
AT1G76135 1 w miRNA 28,568,808 28,568,928 1 No splice variant annotated
    Predicted function: MIR394B; miRNA