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.



TTACAAGATTCTGAAATAGTCTTATTAGTACGTAGTGACTATTAAGCGGTGATGCATTCAATATAAAAGCGGTGATGCATTCAATTCCAGTATGTGGAAGAACGCATCCAGTATGTGGAAGAACGCAATGAGATCGATAAGTGAGAATGATGAGATCGATAAGTGAGAATGTAAGGACTTGTCTAACCGGTGACCACAAGCTAGTCACCGGTTTTTTGTTCGACGATGCAAACTTGAGTTTTGTTCGACGATGCATGAGTTTTGTTCGACGATGCAACGTAATTCGTTGACAAATTGCAAGGAAGATGCATACCTATGGATGTCAGATTGAGTAGTAGAGAAATAGAAATAGCTATAAAGCTCAGGATAGCTATAAAGCTCAGGAGGATAGCTATAAAGCTCAGGAGGGAATAGCTATAAAGCTCAGGAGGGATTAGCTATAAAGCTCAGGAGGGTAGCTATAAAGCTCAGGAGGGAAGCTATAAAGCTCAGGAGGGACTATAAAGCTCAGGAGGGATACTATAAAGCTCAGGAGGGATAGCTATAAAGCTCAGGAGGGATAGCGTATAAAGCTCAGGAGGGATATATAAAGCTCAGGAGGGATAGTATAAAGCTCAGGAGGGATAGCTATAAAGCTCAGGAGGGATAGCGTATAAAGCTCAGGAGGGATAGCGCTATAAAGCTCAGGAGGGATAGCGCCATAAAGCTCAGGAGGGATAGCGCATAAAGCTCAGGAGGGATAGCGCCTAAAGCTCAGGAGGGATATAAAGCTCAGGAGGGATAGTAAAGCTCAGGAGGGATAGCGTAAAGCTCAGGAGGGATAGCGCTAAAGCTCAGGAGGGATAGCGCCTAAAGCTCAGGAGGGATAGCGCCAAAAGCTCAGGAGGGATAGAAAGCTCAGGAGGGATAGCAAAGCTCAGGAGGGATAGCGAAAGCTCAGGAGGGATAGCGCAAAGCTCAGGAGGGATAGCGCCAAAGCTCAGGAGGGATAGCGCCAAAAGCTCAGGAGGGATAGCGCCATAAGCTCAGGAGGGATAGCAAGCTCAGGAGGGATAGCGAAGCTCAGGAGGGATAGCGCAAGCTCAGGAGGGATAGCGCCAAGCTCAGGAGGGATAGCGCCAAAGCTCAGGAGGGATAGCGCCATAAGCTCAGGAGGGATAGCGCCATGAAGCTCAGGAGGGATAGCGCCATGGCAGCTCAGGAGGGATAGCGAGCTCAGGAGGGATAGCGCAGCTCAGGAGGGATAGCGCCAGCTCAGGAGGGATAGCGCCAAGCTCAGGAGGGATAGCGCCATAGCTCAGGAGGGATAGCGCCATGAGCTCAGGAGGGATAGCGCCATGGAGCTCAGGAGGGATAGCGCCATGGCAGCTCAGGAGGGATAGCGCCATGGCTGCTCAGGAGGGATAGCGCGCTCAGGAGGGATAGCGCCGCTCAGGAGGGATAGCGCCAGCTCAGGAGGGATAGCGCCATGCTCAGGAGGGATAGCGCCATGGCCTCAGGAGGGATAGCGCCCTCAGGAGGGATAGCGCCACTCAGGAGGGATAGCGCCATCTCAGGAGGGATAGCGCCATGCTCAGGAGGGATAGCGCCATGGCTCAGGAGGGATAGCGCCATGGCCTCAGGAGGGATAGCGCCATGGCTCTCAGGAGGGATAGCGCCATGGCTCCTCAGGAGGGATAGCGCCATGGCTCACCATCAGGAGGGATAGCGCCATCAGGAGGGATAGCGCCATGTCAGGAGGGATAGCGCCATGGTCAGGAGGGATAGCGCCATGGCTTCAGGAGGGATAGCGCCATGGCTCCAGGAGGGATAGCGCCATCAGGAGGGATAGCGCCATGCAGGAGGGATAGCGCCATGGAGGAGGGATAGCGCCATGAGGAGGGATAGCGCCATGGCTCAAGGAGGGATAGCGCCATGGCTCACAGGGATAGCGCCATGGCTCACAGGGATAGCGCCATGGCTCACCAGGCGCTATCCCTCCTGAGCTGGCGCTATCCCTCCTGAGCTTATGGCTCACCAGTGCTGTATGTTTTGGCGCTATCCCTCCTGAGCTTGGCGCTATCCCTCCTGAGCTTAGCACTGGTGAGCCATGGCGCTACAGCACTGGTGAGCCATGGCGCTAGTATGTTTTGTATATGCGTAATACAGCACTGGTGAGCCATCATACAGCACTGGTGAGCCATGTTTTGTATATGCGTACATGTATATCTGTTGGCACATACAGCACTGGTGAGCCAACATACAGCACTGGTGAGCCATGACATACAGCACTGGTGAGCCATGGAACATACAGCACTGGTGAGCCAACATACAGCACTGGTGAGCCATAACATACAGCACTGGTGAGCCATGTTTGTATATGCGTACATGTATATCTGTTGGCAAACATACAGCACTGGTGAGCCAAACATACAGCACTGGTGAGCCATAAAACATACAGCACTGGTGAGTGTATATGCGTACATGTATATCTGGTATATGCGTACATGTATATCTGTTGACAAAACATACAGCACTGGTGAGCTATATGCGTACATGTATATCTGTTACAAAACATACAGCACTGGTGAGATACAAAACATACAGCACTGGTGATATGCGTACATGTATATCTGTATGCGTACATGTATATCTGTTGGCTGCGTACATGTATATCTGTTGGCGGCGTACATGTATATCTGTTGGGCGTACATGTATATCTGTTGGCGCGTACATGTATATCTGTTGGCGGTACATGTATATCTGTTGGCGTACATGTATATCTGTTGGCGCATGTACGCATATACAAAACATACATGTATATCTGTTGGCGCTATCTGTATATCTGTTGGCGCTATCCATCTGTTGGCGCTATCCATCCTGATCTGTTGGCGCTATCCATCCTGAGTCTGTTGGCGCTATCCATCCTGAGTTCTGTTGGCGCTATCCATCCTGAGTTTGGCGCTATCCATCCTGAGTTTGGCGCTATCCATCCTGAGTTTTGGCGCTATCCATCCTGAGTTCTTGGCGCTATCCATCCTGAGTTCCTGGCGCTATCCATCCTGATGGCGCTATCCATCCTGAGTGGCGCTATCCATCCTGAGTTGGCGCTATCCATCCTGAGTTTGGCGCTATCCATCCTGAGTTCTGGCGCTATCCATCCTGAGTTCCGGCGCTATCCATCCTGAGTTGCGCTATCCATCCTGAGTGCGCTATCCATCCTGAGTTCGCGCTATCCATCCTGAGTTCCCGCTATCCATCCTGAGTTCGCTATCCATCCTGAGTTCCGCTATCCATCCTGAGTTCCCGCTATCCATCCTGAGTTCCACGCTATCCATCCTGAGTTCCATGCTATCCATCCTGAGTTCGCTATCCATCCTGAGTTCCGCTATCCATCCTGAGTTCCAGCTATCCATCCTGAGTTCCATCTATCCATCCTGAGTTCCCTATCCATCCTGAGTTCCACTATCCATCCTGAGTTCCATCTATCCATCCTGAGTTCCATAGCCTATCCATCCTGAGTTCCATAGCTATCCATCCTGAGTTCCATAGCTCCATCCTGAGTTCCATAGCTCATCCTGAGTTCCATAGCTTCCATCCTGAGTTCCATAGCTTCTATCCTGAGTTCCATAGCTTCTTGGATAGCGCCAACAGATATACATCAGGATGGATAGCGCCAACAGGATGGATAGCGCCAACAGTCAGGATGGATAGCGCCAACTCAGGATGGATAGCGCCAACAGATACTCAGGATGGATAGCGCCCTCAGGATGGATAGCGCCACTCAGGATGGATAGCGCCAACTCAGGATGGATAGCGCCAACACTCAGGATGGATAGCGCCACTCAGGATGGATAGCGCCAACTCAGGATGGATAGCGCCAAACTCAGGATGGATAGCGCCAACAGAAACTCAGGATGGATAGCGCCAAACTCAGGATGGATAGCGCCAACAGAACTCAGGATGGATAGCGCCAAGAACTCAGGATGGATAGCGCCAACATGGAACTCAGGATGGATAGCATGGAACTCAGGATGGATAGCGCATGGAACTCAGGATGGATAGCGCCTATGGAACTCAGGATGGATAGTATGGAACTCAGGATGGATAGCGCGCTATGGAACTCAGGATGGATAGGCTATGGAACTCAGGATGGATAGCGCTATGGAACTCAGGATGGATAGCGCCAGCTATGGAACTCAGGATGGAAGCTATGGAACTCAGGATGGATAAGCTATGGAACTCAGGATGGATAGAAGCTATGGAACTCAGGATGGATAGAAGCTATGGAACTCAGGATGGATAGAAGCTATGGAACTCAGGATGGAAAGAAGCTATGGAACTCAGGATGGAGAAGAAGCTATGGAACTCAGGATAAGAAGAAGCTATGGAACTCAGGAAGCAAGAAGAAGCTATGGAACTCAAAGCAAGAAGAAGCTATGGAACTCAACTTGTAAGACCACACTTTAGAATTACATTGTTACTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAGTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAGTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAGTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAGTCAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAAAAAAAAATACAAAAAAAAAAAAAAAATTACAAAAAAAAAAAAAAAAGACTACTGGTGGACTTTTATTAACACATATTGGATAATATACATATGCTGGCTCTAGCACACGGCGAGCTGGCTGGCTCTAGCACACGCTGGCTGGCTCTAGCACACGGGTGTAGAAAATATGGACGAGAGAAATTGTGTAGAAAATATGGACGAGAGAATGTTGTGTAGAAAATATGGACGAGAGAATTGTTGTGTAGAAAATATGGACGAGAGATTGGGATTTTCGGCATTAGTCCATTAAAGAGTTGGCCAATCCCCGGATTGGCCAACTCTTTAATGTGTTTCAAGTGCCGGATTGGCCAACTCTCACATAGAGAACTTTACGAGATGTGTATATGTCATGACCAGTTCTCTATGTGTATATGTCGGATCCAGATTGAACGATATCCCAAGGACTAAAGAGAAGGGTCTGGATCCCAAGGACTAAAGAGAAGGAATCTGGATCCCAAGGACTAAAGAGAAGGGTGCAATCTGGATCCCAAGGACTAAAGAGAAGGGTTTTGGATAAAAGACGTTGTTACCACTCATTTGTAAAACCATGATTAGGATTAGGGTTTTACAGTGAAGTTGGCAATAAAATCATAAAGGTCACTGCATACTTCAGAGTTGATCTGAAGTATGCAGTGACCTTTCAGTTGATCTGAAGTATGCAGTATCAGTTGATCTGAAGTATGCAGTGACCAGTGGGGGATGGCTAGGCACTTGTATTTTCGGAGTTGTTATCACAATTTTCGGAGTTGTTATCTCTTTACAATTTTCGGAGTTGTCATGTTGTATTGTGTAATGCATTCATGTTGTATTGTGTAATGCATTTTTCATGTTGTATTGTGTAATGCATTTTTTCATGTTGTATTGTGTAATGCATTGTTTTCATGTTGTATTGTGTTCAACACAAACAAAACAGTCGTATGTTCTGTTCAACACAAACAAAACAGTCGTATGTTTTTTTTGACTCTGTTCAACACAAGAAGCAAAAAAGGGACTTCTTCCTTCTTTTTTTGACTCAAAAAAGGGACTTCTGGTGTTTTTGCTTCTCTTCCTTCTTTTTTGCAAATTGGTGCTATGATGATTTCAGGTGAGTATTGCAAATTGGTGCTATGATGATTAAGGAAGCTGATATTTAACAAGGAAGCTGATATTTAACTGCTGAAGGAAGCTGATATTTAACTGCTTGAAGGAAGCTGATATTTAACTTTATTGAAGGAAGCTGATATTTGTTTTTTGTTTTATTGAAGGAAGCTGTTTGTTTTTTGTTTTATTGAAGGAAGCATAAACCGGAGATGCATGAAATAAACCGGAGATGCATGAATAAACCGGAGATGCATGAATAAACCGGAGATGCATGAATAATCGGAGATGCATGAATAATAGATCGTTCTGTTTCTTTGGGGATCTTTTCTCCCTACTTGTTCTGTTGAACAAAAACCTACCTCTTTAGGTTTTTGTTCACTTTGACCTATATGAGGATTCATAGAACAATGAGGATTCATAGAACATTTTTGAGGATTCATAGAACATTTTTAAAATGTTCTATGAATCCTTTTTAGTAAAATGTTCTATGAATCCAAGGAGGGAATTTTAGTATTTTGTGTGTGTTAAGGAGAGTTTTGTGTGTGTTAAGGAGGGAATTATGAATCAGCTGTTATGTGTTCAATGAATCAGCTGTTATGTGTTGAATGAATCAGCTGTTATGTGTTCATGAATGAATCAGCTGTTATGTGTTGAGGAATGAATGAATCAGCGAGGAATGAATGAATCAGCTGTCTTTCTCTCAATATGGACGAGAAGAGAGGAATGAATGAATCAGCTAAAGAGAGGAATGAATGAATCAAAGAGAGGAATGAATGAATCAGCTGAAAGAGAGGAATGAATGAATCClick to see list of reads 23,636,271 - 23,636,480 23,636,478 - 23,636,687 23,636,585 - 23,636,794 23,636,952 - 23,637,161 23,636,953 - 23,637,162 23,636,954 - 23,637,163 23,636,956 - 23,637,165 23,636,957 - 23,637,166 23,636,959 - 23,637,168 23,636,960 - 23,637,169 23,636,961 - 23,637,170 23,636,962 - 23,637,171 23,636,963 - 23,637,172 23,636,964 - 23,637,173 23,636,965 - 23,637,174 23,636,970 - 23,637,179 23,637,010 - 23,637,219 23,637,013 - 23,637,222 23,637,015 - 23,637,224 23,637,016 - 23,637,225 23,637,020 - 23,637,229 23,637,030 - 23,637,239 23,637,031 - 23,637,240 23,637,033 - 23,637,242 23,637,034 - 23,637,243 23,637,035 - 23,637,244 23,637,038 - 23,637,247 23,637,039 - 23,637,248 23,637,041 - 23,637,250 23,637,042 - 23,637,251 23,637,654 - 23,637,863 23,637,721 - 23,637,930 23,638,347 - 23,638,556 23,638,350 - 23,638,559 23,638,470 - 23,638,679 23,638,559 - 23,638,768 23,638,562 - 23,638,353 23,638,405 - 23,638,196 23,638,184 - 23,637,975 23,638,173 - 23,637,964 23,638,131 - 23,637,922 23,637,975 - 23,637,766 23,637,862 - 23,637,653 23,637,783 - 23,637,574 23,637,497 - 23,637,288 23,637,059 - 23,636,850 23,637,056 - 23,636,847 23,637,055 - 23,636,846 23,637,051 - 23,636,842 23,637,050 - 23,636,841 23,637,049 - 23,636,840 23,637,047 - 23,636,838 23,637,006 - 23,636,797 23,637,004 - 23,636,795 23,637,003 - 23,636,794 23,637,002 - 23,636,793 23,636,982 - 23,636,773 23,636,981 - 23,636,772 23,636,541 - 23,636,332 23,636,537 - 23,636,328 23,636,445 - 23,636,236 23,636,394 - 23,636,185 23,636,373 - 23,636,164 23,636,371 - 23,636,162 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
AT5G58465 5 w miRNA 23,636,947 23,637,066 1 No splice variant annotated
    Predicted function: MIR390B; miRNA