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.



ATTCAGAAGATTGTTATTATATTCGAAAATGGGGGAAGAGAATAATAAAAATGAGTGGTCGTAACCTGCTGCTTGATAGGGTTCCCTTCTTCTGTAATAAGAAGAAGAAGGGAAAAATGAGGTTTATGATATGCCATTACAAAACCTAGAACTCCTTCTCTCTATTACAAAACCTAGAACTCCTACAAAACCTAGAACTCCTTCTACAAAACCTAGAACTCCTACAAAACCTAGAACTCCTTCTCTCTTCTCAAAACCTAGAACTCCTTCTCTCTCTCTCTTCTCTTTCTTCCTTCATATCCCTGTCTAAAGGGATGTCTAAAGGGATTATTATGATAGTAGAGTCTCTAAAGGGATTATTATGATAGTAGAGTCTTTATGATAGTAGAGTCTCACCATCGGGCTCGGATTGATAGTAGAGTCTCACCATCGGGCTCGGATGATAGTAGAGTCTCACCATCGGGCTCGGATATAGTAGAGTCTCACCATCGGATAGTAGAGTCTCACCATCGGGCATAGTAGAGTCTCACCATCGGGCTCGGATTCGCTGTAGAGTCTCACCATCGGGCTCGAGAGTCTCACCATCGGGCTCGGATGAGTCTCACCATCGGGCTCGGATGAGTCTCACCATCGGGCTCGGATTAGTCTCACCATCGGGCTCGGATCATCGGGCTCGGATTCGCTTGGTGATCGGGCTCGGATTCGCTTGGCGGGCTCGGATTCGCTTGGTGCAGGTCGGGAACCCCCGATGGTGAGACTCTACTCTCGGATTCGCTTGGTGCAGGCTCGGATTCGCTTGGTGCAGGTCTCGGATTCGCTTGGTGCAGGTCCTCGGATTCGCTTGGTGCAGGTCGTCGGATTCGCTTGGTGCAGTCGGATTCGCTTGGTGCAGGTCGGTCGGATTCGCTTGGTGCAGGTCGGGCGGATTCGCTTGGTGCAGGTCGGATTCGCTTGGTGCAGGTCCGGATTCGCTTGGTGCAGGTCGGGCGGATTCGCTTGGTGCAGGTCGGGACGGATTCGCTTGGTGCAGGTCGGGAAGAGCCCGATGGTGAGACTCTAGGATTCGCTTGGTGCAGGGGATTCGCTTGGTGCAGGTCGGATTCGCTTGGTGCAGGTCGGGATTCGCTTGGTGCAGGTCGGGGGATTCGCTTGGTGCAGGTCGGGAGATTCGCTTGGTGCAGGTCGGGATTCGCTTGGTGCAGGTCGGGGATTCGCTTGGTGCAGGTCGGGAAATTCGCTTGGTGCAGGTCGGGATTCGCTTGGTGCAGGTCGGGAATTCGCTTGGTGCAGGTCGGGAAATTCGCTTGGTGCAGGTCGGGAACATTCGCTTGGTGCAGGTCGGGAACCTTCGCTTGGTGCAGGTCGGGTTCGCTTGGTGCAGGTCGGGATTCGCTTGGTGCAGGTCGGGAATTCGCTTGGTGCAGGTCGGGAACTTCGCTTGGTGCAGGTCGGGAACCTCGCTTGGTGCAGGTCGGTCGCTTGGTGCAGGTCGGGTCGCTTGGTGCAGGTCGGGATCGCTTGGTGCAGGTCGGGAATCGCTTGGTGCAGGTCGGGAACTCGCTTGGTGCAGGTCGGGAACCTCGCTTGGTGCAGGTCGGGAACCATCGCTTGGTGCAGGTCGGGAACCAATCGCTTGGTGCAGGTCGGGCGCTTGGTGCAGGTCGGGACGCTTGGTGCAGGTCGGGAACGCTTGGTGCAGGTCGGGAACCGCTTGGTGCAGGTCGGGAACCCGCTTGGTGCAGGTCGGGAACCACGCTTGGTGCAGGTCGGGAACCAAGCTTGGTGCAGGTCGGGAGCTTGGTGCAGGTCGGGAAGCTTGGTGCAGGTCGGGAACGCTTGGTGCAGGTCGGGAACCGCTTGGTGCAGGTCGGGAACCAGCTTGGTGCAGGTCGGGAACCAAGCTTGGTGCAGGTCGGGAACCAATCTTGGTGCAGGTCGGGAACTTGGTGCAGGTCGGGAACCTTGGTGCAGGTCGGGAACCCTTGGTGCAGGTCGGGAACCACTTGGTGCAGGTCGGGAACCAATTGGTGCAGGTCGGGAACTTGGTGCAGGTCGGGAACCTTGGTGCAGGTCGGGAACCATTGGTGCAGGTCGGGAACCAATGGTGCAGGTCGGGAACCTGGTGCAGGTCGGGAACCATGGTGCAGGTCGGGAACCAATGGTGCAGGTCGGGAACCAATTGGTGCAGGTCGGGAACCAATTGGTGCAGGTCGGGAACCAGGTGCAGGTCGGGAACCAAGGTGCAGGTCGGGAACCAATGGTGCAGGTCGGGAACCAATTGGTGCAGGTCGGGAACCAATTCGTGCAGGTCGGGAACCAATTCTGCAGGTCGGGAACCAATTTGCAGGTCGGGAACCAATTCTGCAGGTCGGGAACCAATTCGTGCAGGTCGGGAACCAATTCGGTGCAGGTCGGGAACCAATTCGGCTGCAGGTCGGGAACCAATTCGGCTGCAGGTCGGGAACCAATTCGGGCAGGTCGGGAACCAATTCGGCTCAGGTCGGGAACCAATTCGGCCAGGTCGGGAACCAATTCGGCTCAGGTCGGGAACCAATTCGGCTGAAGGTCGGGAACCAATTCGGCAGGTCGGGAACCAATTCGGCTAGGTCGGGAACCAATTCGGCTGAAGGTCGGGAACCAATTCGGCTGACAGGTCGGGAACCAATTCGGCTGAGTCGGGAACCAATTCGGCTGATCGGGAACCAATTCGGCTGACTCGGGAACCAATTCGGCTGACACACGGGAACCAATTCGGCTGACGGGAACCAATTCGGCTGACACCCGACCTGCACCAAGCGAACCCGACCTGCACCAAGCGAATCCAATTCGGCTGACACAGCCAATTCGGCTGACACAGCCCAATTCGGCTGACACAGCCCCAATTCGGCTGACACAGCCTCCAATTCGGCTGACACAGCCTCCCAATTCGGCTGACACAGCCTCGCCAATTCGGCTGACACAGCCTCGTCCAATTCGGCTGACACAGCCTCGTGCCAATTCGGCTGACACAGCCTCGTGACCCAATTCGGCTGACACAGCCTCGTGACTCCAATTCGGCTGACACAGCCTCGTGACTTCCAATTCGGCTGACACAGCCTCGTGACTTTCCAATTCGGCTGACACAGCCTCGTGACTTTTACCAATTCGGCTGACACAGCCTCGTGACTTTTAAATGGTTCCCGACCTGCACCAAGCGGCTGACACAGCCTCGTGACTACAGCCTCGTGACTTTTAAACCTTTATTGGCAGCCTCGTGACTTTTAAACCTTTAGCCTCGTGACTTTTAAACCCCTCGTGACTTTTAAACCTTTACCTCGTGACTTTTAAACCTTTATTGGTTCTCGTGACTTTTAAACCTTCGTGACTTTTAAACCTTTATTGGTACGAGGCTGTGTCAGCCGAATTGGTAAACCTTTATTGGTTTGTGAGCAGGGATTGGATAAACCTTTATTGGTTTGTGAGCAGGGATTAAACCTTTATTGGTTTGTGAGCAGGGATTGGATACCTTTATTGGTTTGTGAGCAGGGATTGGATACCTTTATTGGTTTGTGAGCAGGGATTGGATCCCTTTATTGGTTTGTGAGCAGGGATTGGATCTTTATTGGTTTGTGAGCTTTATTGGTTTGTGAGCAGGGATTGGATTTATTGGTTTGTGAGCAGGGATTGGATTTATTGGTTTGTGAGCAGGGATTGGATCTATTGGTTTGTGAGCAGGGATTGGTATTGGTTTGTGAGCAGGGATTGGATATTGGTTTGTGAGCAGGGATTGGATATTGGTTTGTGAGCAGGGATATTGGTTTGTGAGCAGGGATTGGAATTGGTTTGTGAGCAGGGATTGGATTTGGTTTGTGAGCAGGGATTTTGGTTTGTGAGCAGGGATTGTTGGTTTGTGAGCAGGGATTGGTTGGTTTGTGAGCAGGGATTGGATTTGGTTTGTGAGCAGGGATTGGATCTTGGTTTGTGAGCAGGGATTGGATCCCGCCTTGGTTTGTGAGCAGGGATTGGATGGTTTGTGAGCAGGGATTGGATTGGTTTGTGAGCAGGGATTGGATCGGTTTGTGAGCAGGGATTGGGGTTTGTGAGCAGGGATTGGATGTTTGTGAGCAGGGATTGGGTTTGTGAGCAGGGATTGGAGTTTGTGAGCAGGGATTGGATTTTGTGAGCAGGGATTGGATTTGTGAGCAGGGATTGGATTGTGAGCAGGGATTGGATAGCAGGGATTGGATCCCGCCTTGCAGCAGGGATTGGATCCCGCCTTGCAAGGGATTGGATCCCGCCTTGCAAGGGATTGGATCCCGCCTTGCATAGGGATTGGATCCCGCCTTGCATCAGGGATTGGATCCCGCCTTGCATCAGGGATTGGATCCCGCCTTGCATCGATTGGATCCCGCCTTGCATCGATTGGATCCCGCCTTGCATCAACTGAATATTGGATCCCGCCTTGCATCAATTGGATCCCGCCTTGCATCAATTGGATCCCGCCTTGCATTTGGATCCCGCCTTGCATCTTGGATCCCGCCTTGCATCATTGGATCCCGCCTTGCATCAATTGGATCCCGCCTTGCATCAACTTGGATCCCGCCTTGCATCAACTTTGGATCCCGCCTTGCATCAACTGTTGGATCCCGCCTTGCATCAACTGAATTGGATCCCGCCTTGCATCAATGGATCCCGCCTTGCATCAACTGGATCCCGCCTTGCATCAACTTGGATCCCGCCTTGCATCAACTGGGATCCCGCCTTGCATCAAGGATCCCGCCTTGCATCAACTGGATCCCGCCTTGCATCAACTGGGATCCCGCCTTGCATCAACTGAGGATCCCGCCTTGCATCAACTGAAGATCCCGCCTTGCATCAAGATCCCGCCTTGCATCAACGATCCCGCCTTGCATCAACTGATCCCGCCTTGCATCAACTGGATCCCGCCTTGCATCAACTGAGATCCCGCCTTGCATCAACTGAAGATCCCGCCTTGCATCAACTGAATGATCCCGCCTTGCATCAACTGAATCGATCCCGCCTTGCATCAACTGAATCGGAATCCCGCCTTGCATCAACATCCCGCCTTGCATCAACTATCCCGCCTTGCATCAACTGATCCCGCCTTGCATCAACTGAATCCCGCCTTGCATCAACTGAAATCCCGCCTTGCATCAACTGAATATCCCGCCTTGCATCAACTGAATCTCCCGCCTTGCATCAACTTCCCGCCTTGCATCAACTGTCCCGCCTTGCATCAACTGATCCCGCCTTGCATCAACTGAATCCCGCCTTGCATCAACTGAATTCCCGCCTTGCATCAACTGAATCCCCGCCTTGCATCAACTGCCCGCCTTGCATCAACTGACCCGCCTTGCATCAACTGAACCCGCCTTGCATCAACTGAATCCCGCCTTGCATCAACTGAATCCCCGCCTTGCATCAACTGAATCGGACCGCCTTGCATCAACTGACCGCCTTGCATCAACTGAACCGCCTTGCATCAACTGAATCCGCCTTGCATCAACTGAATCCCGCCTTGCATCAACTGAATCGGACGCCTTGCATCAACTGAACGCCTTGCATCAACTGAATCGCCTTGCATCAACTGAATCGGCGCCTTGCATCAACTGAATCGGATGCCTTGCATCAACTGAATGCCTTGCATCAACTGAATCGGATCCTTGCATCAACTGAATCCCTTGCATCAACTGAATCGCCTTGCATCAACTGAATCGGCCTTGCATCAACTGAATCGGACCTTGCATCAACTGAATCGGATCCTTGCATCAACTGAATCGGATCCCTTGCATCAACTGAATCGGATCCCTTGCATCAACTGAATCGGCTTGCATCAACTGAATCGGACTTGCATCAACTGAATCGGATTTGCATCAACTGAATCGGATTTGCATCAACTGAATCGGATCTTGCATCAACTGAATCGGATCCTGCATCAACTGAATCGGATGCATCAACTGAATCGGATCCGCATCAACTGAATCGGATCCATCAACTGAATCGGATCCTCATCAACTGAATCGGATCCTCTCAACTGAATCGGATCCTCGAGGTCAACTGAATCGGATCCTCGAGGTGTAACTGAATCGGATCCTCGAGGTAACTGAATCGGATCCTCGAGGTGTTGATGCAAGGCGGGATCCAATACTGAATCGGATCCTCGAGGTGTAAAAACAGTTGATGCAAGGCGGGATTCAGTTGATGCAAGGCGGGATCAGTTGATGCAAGGCGGGATATCGGATCCTCGAGGTGTAACGGATCCTCGAGGTGTAAAAAAACTCGAGGATCCGATTCAGTTGATGCATGTAAAAAAACTCGTAAATCCTTCCTATCAGATCTGGAAGAATCTGGAAGATTTCTACGCTATTTCTACGCTTCTCCTTAAGGAGAAGCGTAGAAATCTTTTTATATTCGTTTTCTTATGCTAAGAAGGAGAAGCGTAGAAATTAAAGAAGGAGAAGCGTAGAAATCAACAATTTCAGATTCAAAGATTTTAGTCTCCTTTTGTTTGCCTGGGCAAACAAAAGGAGACTACTTTGTTTCGAAATTTTAGGATTTTCGAAATTTTAGGATTTGTAAATTTTAGGATTTGTAGATGTAGGTTAGGATTTGTAGATGTAGGTAGGATTTGTAGATGTAGGAGTAAAATTTCGAAACAAAGGCAATTTGTAGATGTAGGAGTATGAGGACTTGTAGATGTAGGAGTATGAGGAATGAGGACTCTTGAATTTAAGGAGGACTCTTGAATTTAATTAAAATGTTAGAGATTGTTGATGTGTTAGAGATTGTTGATGTAGAGATTGTTGATGTGATTAGTTCTTTATTGATCGTTACAGCAATTATTGATCGTTACAGCAATCTAATAAGATTTGATTCGACGATTGAGATTTGATTCGACGATTGGTTTTAGATTTGATTCGACGATTGGTTTTATTGTGATTCGACGATTGGTTTTATTGTGGATAGGCTGGTTTTATTGTGGATAGGCTTATTGTGGATAGGCTTCGATGATCCACAATAAAACCAATCGTCGACTTCGATGATGAGATTGAAATTCCTTAAAGTCGATGATGAGATTGAAATTCCTCGATGATGAGATTGAAATTCCTTAAAGTTTGACTGTTACCTTTAAGGAAACTGAGATTTGACTGTTACCTTTTCACTGAGATTTGACTGTTACGAAGCAAATCTATTGTCCGGTATCTATTGTCCGGTTTATACCAACCGGACAATAGATTTGCTTAAACCGGACAATAGATTTGCAAACCGGACAATAGATTTGCTTAAACCGGACAATAGATTTGCTAAACCGGACAATAGATTTGCTATAAACCGGACAATAGATTTTATAAACCGGACAATAGATTATAAACCGGACAATAGATTTTTTTGCTCTTTACACTTATGTATGTTTATAATTGTGGCTTTATAAGTGTAAAGAGCAAAACCGGTGTTTATAATTGTGGCTTTACGCGATTTAACAATTCACTCTGTGATTTAACAATTCACTCTGTTAACAATTCACTCTGTGTGACTTAACAATTCACTCTGTGTGACTCTGTGTGACTTTGTAGATGACCTGTGTGACTTTGTAGATGACATGTGTGACTTTGTAGATGACAATGATTGCTTTGTAGATGACAATGATTGAATTTTGTAGATGACAATGATTGAATTAGTTCATCTACAAAGTCACACAGAGTAAGAGATGAAGAGAGGATTCATTGGAGGCATGGAAGAGAGGATTCATTGGAGGCATGAGGATTCATTGGAGGCATGTGAAGATTGGAGGCATGTGAAGTGAAGATGGAGGCATGTGAAGTGAAGATATTAGGCATGTGAAGTGAAGATATTATATTTTTTTGTTTTCCATTCATTTATGGATATGTAATGTATAAATTTATGGATATGTAATGTATTAAAATTGTTAAAGAAAACAAATGGTGTTATACATTACATATCCATAAATGAAAGAAAACAAATGGTGTGGAAGTAAATGGTGTGGAAGTAAAGAAACAAATGGTGTGGAAGTAAAGAAACAAAAGAAACAGAACCAATTCGTTAGTACCGTTAGTGCAGAATACGGTACTAATCGAATTGGTTATGATGGTACTAGTGGCAAACAAACTGATGGTACTAGTGGCAAACTGATGGTACTAGTGGCAAACAGATGGTACTAGTGGCAAACAGGTGGTTGTTTCAGACTATGGTGGTTGTTTCAGACTATGGTTTCAGACTATGCATTTCATGTTTTAGCTTTGTTATCGATCGTCTTTTAGCTTTGTTATCGATCGTCTTTGTTATCGATCGTCTTGGTTATCGATCGTCTTGTACCATCGATCGTCTTGTACCTTTTTTGTTTCTTTACACACTTTTTAGTCACTTTTTAGTTGGAATCTCTAATGTATAACTTTTTAGTTGGAATCTTTAGTTGGAATCTCTAATTTAGTTGGAATCTCTAATGGTAAGTATAGTATCAGAAAAGATTACGTGTCCTCAAGGTCCTCAAGTATAATGATAGTAGTATAATGATAGTTGGAGTATAATGATAGTTGGATTATAATGATAGTTGGATTGATAGTTGGATTTGAGGGGATAGTTGGATTTGAGGGTATAGTTGGATTTGAGGGTTTAGTTGGATTTGAGGGTTTGTTGGATTTGAGGGTTTTCGAAAAGTTCTCAGTTTCGTCAATGGTTCTCAGTTTCGTCAATGTCAGTTTCGTCAATGGGCAACTGAGAACTTTTTGACGAATCAGCTGCTCCAGTCTTTAGTCTAATGCTTGCAAAATCCAGCGATCAGTTTTGAAAATTATATAAGTTTGGATTAATGCTCTGTATAAAAGGTAGGTACAGTGTAGATGATGAGTAAAATGTTACAGTGTAGATGATGAGTAATGTTGGAATTCTTACAAACAClick to see list of reads 10,578,445 - 10,578,654 10,578,623 - 10,578,832 10,578,639 - 10,578,848 10,578,645 - 10,578,854 10,578,647 - 10,578,856 10,578,648 - 10,578,857 10,578,649 - 10,578,858 10,578,650 - 10,578,859 10,578,651 - 10,578,860 10,578,652 - 10,578,861 10,578,653 - 10,578,862 10,578,654 - 10,578,863 10,578,655 - 10,578,864 10,578,656 - 10,578,865 10,578,657 - 10,578,866 10,578,658 - 10,578,867 10,578,659 - 10,578,868 10,578,660 - 10,578,869 10,578,661 - 10,578,870 10,578,662 - 10,578,871 10,578,663 - 10,578,872 10,578,665 - 10,578,874 10,578,666 - 10,578,875 10,578,668 - 10,578,877 10,578,673 - 10,578,882 10,578,713 - 10,578,922 10,578,716 - 10,578,925 10,578,729 - 10,578,938 10,578,730 - 10,578,939 10,578,731 - 10,578,940 10,578,732 - 10,578,941 10,578,733 - 10,578,942 10,578,734 - 10,578,943 10,578,735 - 10,578,944 10,578,736 - 10,578,945 10,578,737 - 10,578,946 10,578,738 - 10,578,947 10,578,741 - 10,578,950 10,578,742 - 10,578,951 10,578,743 - 10,578,952 10,578,744 - 10,578,953 10,578,746 - 10,578,955 10,578,959 - 10,579,168 10,579,047 - 10,579,256 10,579,069 - 10,579,278 10,579,137 - 10,579,346 10,579,278 - 10,579,487 10,579,285 - 10,579,494 10,579,311 - 10,579,520 10,579,328 - 10,579,537 10,579,349 - 10,579,558 10,579,542 - 10,579,751 10,579,575 - 10,579,784 10,579,821 - 10,580,030 10,580,194 - 10,580,403 10,579,876 - 10,579,667 10,579,551 - 10,579,342 10,579,303 - 10,579,094 10,579,301 - 10,579,092 10,579,300 - 10,579,091 10,579,299 - 10,579,090 10,579,251 - 10,579,042 10,578,981 - 10,578,772 10,578,905 - 10,578,696 10,578,827 - 10,578,618 10,578,824 - 10,578,615 10,578,755 - 10,578,546 10,578,750 - 10,578,541 10,578,675 - 10,578,466 10,578,670 - 10,578,461 10,578,647 - 10,578,438 10,578,534 - 10,578,325 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
ath-MIR168a 4 w miRNA 10,578,635 10,578,772 1 No splice variant annotated
    Predicted function: miRNA