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.



GTCTCGTATTTTGATTGCTCTTCCAGGACGTAATGAAAGACATGTCATTTTGCGTGTTGATCTGAGCACATTTTGCGTGTTGATCTGAGCAGTCATTTTGCGTGTTGATCTGAGCAGTCTTTGCGTGTTGATCTGAGCTTGCGTGTTGATCTGAGCAGTCTGCATGCGTGTTGATCTGAGCAGTCCGTGTTGATCTGAGCAGTCTGCATCTGAGCAGTCTGCAGAAAGAATACAAAGCTATTTTTACCCGTAATTATCAAGAAAGAACTTACTTGAGCACCTCCCAAAAAGAACTTACTTGAGCACCTCATTACGAAAAGTATGCTGCCACGAAAAGTATGCTGCCATCGCTAGAGGGTGTTGAGCCCGTCTGCTAACTTTTGCGTTGAACGCTTTTGGAGTCTTGTGGAATTTGGAGTCTTGTGGAAAGCTTGGAGTCTTGTGGAAAGCTGCAACTGTCTTGTGGAAAGCTGCAACTTCTTTGTGGAAAGCTGCAACTTTCTAGATAAAATGATGGTCAAACTGAAAAGATAAAATGATGGTCAAACTGAAAGATAAAATGATGGTCAAACTGAAAGAGATAAAATGATGGTCAAACTGAAAGAGCAAGGACTAAAATGATGGTCAAACTAAATGATGGTCAAACTGAAAGAGCGATGGTCAAACTGAAAGAGCAAGGGATGGTCAAACTGAAAGAGCAAGGAATGGTCAAACTGAAAGAGCAAGGACCAAACTGAAAGAGCAAGGACACAAACTGAAAGAGCAAGGACAAACTGAAAGAGCAAGGACACAGAGTAAACTGAAAGAGCAAGGACACAGAGTCCTAAACTGAAAGAGCAAGGACACAGAGAACTGAAAGAGCAAGGACACAGAGTCCTAATACTGAAAGAGCAAGGACACAGAGTCCTCTGAAAGAGCAAGGACACAGAGTCCTAATAGCATATGCTGGACTTACTTGAAGACTCATATGCTGGACTTACTTGAAGACTACTGCATATGCTGGACTTACTTGAAGACTACTGTACCCATATGCTGGACTTACTTGAAGAATATGCTGGACTTACTTGAAGACTTATGCTGGACTTACTTGATGCTGGACTTACTTGAAGACTTGCTGGACTTACTTGAAGACTATGCTGGACTTACTTGAAGACTACTGGCTGGACTTACTTGAAGACTGCTGGACTTACTTGAAGACTACTGGACTTACTTGAAGACTACTGGACTTACTTGAAGACTACTGTTACTTGAAGACTACTGTACCTACTTGAAGACTACTGTACCCACTTGAAGACTACTGTACCCACTTGAAGACTACTGTACCCAACTTGAAGACTACTGTACCCATAAGCTTGAAGACTACTGTACCCATTGAAGACTACTGTACCCATAAGTTATATGTACAGTCTGTTTGCTGAAATTGAGAGTATATGAGAGAGTATATGAGCATTCTGTGCCAGAGTATATGAGCATTCTGTGCCCGAGTATATGAGCATTCTGTGCCGAGTATATGAGCATTCTGTGCCCAAGTATATGAGCATTCTGTGCCCAAGTATATGAGCATTCTGTGCCCAACCAACTGAAAGAGCAAAGACACCAACTGAAAGAGCAAAGACACCAACTGAAAGAGCAAAGACACAAAACTGAAAGAGCAAAGACAAACTGAAAGAGCAAAGACACAAAAACTGAAAGAGCAAAGACACAAAGCAGTACAAATCACAAGTTTAGCAGTACAAATCACAAGTTTAGCCTTAGCCATCTTCTATGTACAGTAGCATCTTCTATGTACAGTAGTTCATCTTCTATGTACAGTAGTTTTATGTACAGTAGTTTTCCCAGTAGTTTTCCAATAGGTCGAGCAGTAGTTTTCCAATAGGTCGAAGTAGTTTTCCAATAGGTCGAGCAGTAGTTTTCCAATAGGTCGAGCATAGTTTTCCAATAGGTCGAGCGTTTTCCAATAGGTCGAGCAGTTTTCCAATAGGTCGAGCATGTTTTCCAATAGGTCGAGCATTTTCCAATAGGTCGAGCATTTTTCCAATAGGTCGAGCATGTTTTCCAATAGGTCGAGCATGTTTTTCCAATAGGTCGAGCATGTGCTTTCCAATAGGTCGAGCATTTTCCAATAGGTCGAGCATGTTTTCCAATAGGTCGAGCATGTGTTCCAATAGGTCGAGCATTTCCAATAGGTCGAGCATGTTCCAATAGGTCGAGCATGTTTCCAATAGGTCGAGCATGTGTTCCAATAGGTCGAGCATGTGCTTCCAATAGGTCGAGCATGTGCTTTCCAATAGGTCGAGCATGTGCTGTCCAATAGGTCGAGCATGTTCCAATAGGTCGAGCATGTGCTCCAATAGGTCGAGCATGTGCTTCCAATAGGTCGAGCATGTGCTGTCCAATAGGTCGAGCATGTGCTGACCAATAGGTCGAGCATGTGCCCAATAGGTCGAGCATGTGCTCCAATAGGTCGAGCATGTGCTGCAATAGGTCGAGCATGTGCCAATAGGTCGAGCATGTGCTGCAATAGGTCGAGCATGTGCTGACAATAGGTCGAGCATGTGCTGAACAATAGGTCGAGCATGTGCTGAAAAATAGGTCGAGCATGTGCTAATAGGTCGAGCATGTGCTGAAATAGGTCGAGCATGTGCTGAAAATAGGTCGAGCATGTGCTGAAACATAGGTCGAGCATGTGCTGAATAGGTCGAGCATGTGCTGAAATAGGTCGAGCATGTGCTGAAAATAGGTCGAGCATGTGCTGAAACATAGGTCGAGCATGTGCTGAAACTTAGGTCGAGCATGTGCTGAAATAGGTCGAGCATGTGCTGAAACTAGGTCGAGCATGTGCTGAAACAGGTCGAGCATGTGCTGAAACTAGGTCGAGCATGTGCTGAAACTGTGTCGAGCATGTGCTGAAACTGTCGAGCATGTGCTGAAACTGTCGAGCATGTGCTGAAACTGTCGAGCATGTGCTGAAACTGTTCGAGCATGTGCTGAAACTGTGTGCGAGCATGTGCTGAAACTGTGCGAGCATGTGCTGAAACTGTGTGCGAGCATGTGCTGAAACTGTGTGTGAGCATGTGCTGAAACTGTGTGAGCATGTGCTGAAACTGTGTGTGAGCATGTGCTGAAACTGTGTGTAATGTGCTGAAACTGTGTGTACAGAGTTTGCTGAAACTGTGTGTACAGAGTTCTGAAACTGTGTGTACAGAGTTCACAGTTTCAGCATATGCTGGATCTAGCATATGCTGGATCTACTTGAGCATATGCTGGATCTACTTGAAGCATATGCTGGATCTACTTGAAGGCATATGCTGGATCTACTTGGCATATGCTGGATCTACTTGAACATATGCTGGATCTACTTGAAGCATATGCTGGATCTACTTGAAGACTATATGCTGGATCTACTTGAAATATGCTGGATCTACTTGAAGATATGCTGGATCTACTTGAAGAATATGCTGGATCTACTTGAAGACATATGCTGGATCTACTTGAAGACTATATGCTGGATCTACTTGAAGACTATATGCTGGATCTACTTGAAGTATGCTGGATCTACTTGAAGATATGCTGGATCTACTTGAAGACTATGCTGGATCTACTTGAAGACTTATGCTGGATCTACTTGAAGACTAATGCTGGATCTACTTGAAGACTACTGCTGGATCTACTTGAAGATGCTGGATCTACTTGAAGACTGCTGGATCTACTTGAAGACTTGCTGGATCTACTTGAAGACTATGCTGGATCTACTTGAAGACTACTGCTGGATCTACTTGAAGACTACTGCTGGATCTACTTGAAGACTCTGGATCTACTTGAAGACTCTGGATCTACTTGAAGACTACTGGATCTACTTGAAGACTACCTGGATCTACTTGAAGACTACTCTGGATCTACTTGAAGACTACTGCTGGATCTACTTGAAGACTACTGTTGGATCTACTTGAAGACTACTGGATCTACTTGAAGACTACTTGGATCTACTTGAAGACTACTGTGGATCTACTTGAAGACTACTGTTGGATCTACTTGAAGACTACTGTTATCTACTTGAAGACTACTGTTACTACTGTTCTTATAAGGTACACTACTGTTCTTATAAGGTACTCTACTGTTCTTATAAGGTACTAGTAGTCTTCAAGTAGATCCAGCATATGCTACTGAACTTGTTATCTGTACTTACTGAACTTGTTATCTGTACTGCACTGAACTTGTTATCTGTACTCTGAACTTGTTATCTGTACTGTGAACTTGTTATCTGTACTTGAACTTGTTATCTGTACTGTGAACTTGTTATCTGTACTGCGTGAACTTGTTATCTGTACTGCGTTGAACTTGTTATCTGTACTGCGTAGAACTTGTTATCTGTACTGCGTTGTTATCTGTACTGCGTATATATCTGTACTGCGTATATACGAGTATCTGTACTGCGTATATACGAGATCTTGCTCTTTTATTTTGACACACTTTGTTCTCATATACACTCACTTTGTTCTCATATACACTTACACTCGGTTCAGCACATGCTACACTCGGTTCAGCACATGCTCCACTCGGTTCAGCACATGCTCGACTTACTGAAAAGGTAGAGTTGATTCTTTGATTCTATGTCTAGGTGCAGAAATGGCAGTACGAGCGAGAAATGGCAGTACGAGCGAAATGGCAGTACGAGCGAATTGACGAGCGAATTGATGGAAAGGTTGGCAGCGAATTGATGGAAAGGTTGTTGATGGAAAGGTTGGCGGAGCTGAGAAAGGTTGGCGGAGCTGAGCGGAAAGGTTGGCGGAGCTGAGCGGCAAAGGTTGGCGGAGCTGAGCGGGTTGGCGGAGCTGAGCGGCAGGCGGAGCTGAGCGGCAAATAGCGGAGCTGAGCGGCAAATACGCCGGCAAATACGCATAGATCGGTTTACGCATAGATCGGTTCAATGACGCATAGATCGGTTCAATGATTCTAACAAGTTTTGTTTTTTGCTCTCCAAACAAGTTTTGTTTTTTGCTCTCCACTGTTTTTTGCTCTCCACAAGAGCTCTTAGGAATAAATCTTGCAACGGCTGATAGGAATAAATCTTGCAACGGCTGACAACGGCTGATACAGTAATCATTTATCAGTAATCATTTATGACAGTGACAGGTTTGAATTTCAGCTATTTCAGCTTCTCTTAGTGTCTTAGTGTCATCTGTACTCAAGCTGTAAGAGGAACTATTTGGCTTGTAAGAGGAACTATTTGGCTTGATAGCATAATGTAAGAGGAACTATTTGGCTTGATGTTGATTTTTAAGTGAATTGGGGATTTTGTAGGCATGCAATATCCTGTTCACATTTTCATACGTACGATGATTGAAACTGTTTTATCTGTTTTATCTGTTTCTGTAGTGACTGGAATCTGTTTCTGTAGTGACAGTGACTGGAATCCTCATGCTAGTGACTGGAATCCTCATGCTGAACTGGAATCCTCATGCTGATCTAATCCTCATGCTGATCTTCAGATCTTCAAGCAATGGCTAGAGCTCATCGACTTGTCTTCAAGCAATGGCTAGAGCTTCTTCAAGCAATGGCTAGAGCTCACAAGCAATGGCTAGAGCTCATCGACTTCAAGCAATGGCTAGAGCTCATCGACTTGGCCAGCAATGGCTAGAGCTCATCGACTTGGCCACTTGAAGATCAGCATGAGGATCAATGGCTAGAGCTCATCGACTTGGCAATGGCTAGAGCTCATCGACTTGGGCTAGAGCTCATCGACTTGGCCAAACTAGAGCTCATCGACTTGGCCCTAGAGCTCATCGACTTGGCCAAACTAGAGCTCATCGACTTGGCCATCGACTTGGCCAAACAAACATCGACTTGGCCAAACAAATAAGAGGTGATGATTTATAGGCGGTGATGATTTATAGGCTCATAAACATGATTTATAGGCTCATAAACCGAGGCACTTATAGGCTCATAAACCGAGGCACCTATAGGCTCATAAACCGAGGCACTATAGGCTCATAAACCGAGGCACCATTGAAGACCATTGAAGAAAGGATGAAAAGAAAATGGTTCTAGAGCATCATGGTTCTAGAGCATCTTGTTGTTGGCATCTTGTTGTTGGGAAACTCAAAACATCTTGTTGTTGGGAAACTCTTGTTGTTGGGAAACTCAAAAGTTGGGAAACTCAAAACACAAAACATTAACGGATTGGAGCTGGAAGGTAGATTTTGTTTTCCTGACTGCAATTTAGAGATGACATCATCAGGTATGACATCATCAGGTATGGATCCATCAGGTATGGATCAAAGGAGCTATCAGGTATGGATCAAAGGAGCTAGGTATGGATCAAAGGAGCTTTTTGCTGGTATGGATCAAAGGAGCTTTTTCTAGTGAAGATGATGAAGCAGGAAAGTGAAGATGATGAAGCAGGAAAGTCTGGGTGAAGATGATGAAGCAGGAAAGTCTGGATGATGAAGCAGGAAAGTCTGGAAAAATTATGATGAAGCAGGAAAGTCTGATGATGAAGCAGGAAAGTCTGGAAGCAGGAAAGTCTGGAAAAATTCATTATGClick to see list of reads 10,717,295 - 10,717,504 10,717,528 - 10,717,737 10,717,808 - 10,718,017 10,717,809 - 10,718,018 10,717,810 - 10,718,019 10,717,816 - 10,718,025 10,717,817 - 10,718,026 10,717,818 - 10,718,027 10,718,022 - 10,718,231 10,718,084 - 10,718,293 10,718,098 - 10,718,307 10,718,100 - 10,718,309 10,718,103 - 10,718,312 10,718,104 - 10,718,313 10,718,105 - 10,718,314 10,718,106 - 10,718,315 10,718,107 - 10,718,316 10,718,108 - 10,718,317 10,718,109 - 10,718,318 10,718,110 - 10,718,319 10,718,111 - 10,718,320 10,718,112 - 10,718,321 10,718,114 - 10,718,323 10,718,115 - 10,718,324 10,718,116 - 10,718,325 10,718,117 - 10,718,326 10,718,167 - 10,718,376 10,718,170 - 10,718,379 10,718,171 - 10,718,380 10,718,173 - 10,718,382 10,718,175 - 10,718,384 10,718,176 - 10,718,385 10,718,179 - 10,718,388 10,718,191 - 10,718,400 10,718,192 - 10,718,401 10,718,210 - 10,718,419 10,718,211 - 10,718,420 10,718,213 - 10,718,422 10,718,217 - 10,718,426 10,718,273 - 10,718,482 10,718,288 - 10,718,497 10,718,345 - 10,718,554 10,718,602 - 10,718,811 10,718,613 - 10,718,822 10,718,627 - 10,718,836 10,718,633 - 10,718,842 10,718,652 - 10,718,861 10,718,764 - 10,718,973 10,718,776 - 10,718,985 10,719,022 - 10,719,231 10,719,143 - 10,719,352 10,719,180 - 10,719,389 10,719,385 - 10,719,594 10,719,687 - 10,719,896 10,719,173 - 10,718,964 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-MIR862 2 w miRNA 10,718,096 10,718,198 1 No splice variant annotated
    Predicted function: miRNA