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.



TAGATGATCTTGATTTCCACTCCTTGATTTGAAGAGTGGAAATCATTCAGAAATCGAACACACACAAACAACAAAATTGAATTCGTACAAAATTGAATTCGTTGTTTAAATTGAATTCGTTGTTTGGGAAAGCTAAAAGGGAAGGCTCTCAAGCTAAAAGGGAAGGCTCTCAAGCTAAAAGGGAAGGCTCTCTGAGCTTTCTGATCATCGTTATCCCTCTCTTCCTTATGTAGTAGATTTCCTTATGTAGTAGATTTGCCGAAGAGAGAAACTAGATTCGGAGGAAGAGAGAAACTAGATTCGGAAAATCTACTACATAAGGAAGCTTCTCCGGCTTTTCGCCGTTGCGGAGAAGATATGATGGCAAGCCGGAGAAGATATGATGGCAAAGCCGGAGAAGATATGATGGCAGCCGGAGAAGATATGATGGCAAAAAGCCGGAGAAGATATGATGGCAAAGCCGGAGAAGATATGATGGCATCGTGAACACAATTACATTCCCGGTGAGAGCGGAATGTAATTGTGTTCATTATCGTTATGGGCTTTATAATTATCGTTATGGGCTTATAATTATCGTTATGGGCTTTAAAGATAATTATCGTTATGGGCTAAGATAATTATCGTTATGGGTGTATGCGGAATGTAAGATAAATTGTGTTGTATGCGGAATGTGGCCAATAGATTGTATAATTGATGACGTGGCCAATAGATTGTATAATGACGTGGCCAATAGATTGTAGAAAATGACGTGGCCAATAGGGATAGAAAATGACGTGGCCAAAGGATAGAAAATGACGTGGCCAATATAGGATAGAAAATGACGTGGCTATAGGATAGAAAATGACGTGGATATAGGATAGAAAATGACGTAATATAGGATAGAAAATGACGTAAATTCCTATAATCGTTTTTGAACAAAAACGATTATAGGAATTTGTTTTAGTATTTTGGATATTGTATCTGTAAATAACTGTAATCTTTACCTTATGAAATATCTTATAGAAAATTAGACGGATCCGTAAATCTACTAGACGGATCCGTAAATCTACTTAAGAAGCCATGCAAGAAAGATTCGCATGGCTTCTTAAGAGTAGATTTACGGATACAATAAATGGTGATCAGAGGATAAATGGTGATCAGAGGCAATAACCAACATGTTATTGCCTCTGATCCAACATGTTATTGCCTCTGATCACCAACATGTTATTGCCTCTGATCACCCCAACATGTTATTGCCTCTGATCACCACCAACATGTTATTGCCTCTGATCACCATCCAACATGTTATTGCCTCTGATCACCATTCCAACATGTTATTGCCTCTGATCACCATTTATCCCAACATGTTATTGCCTCTGATCACCCCAACATGTTATTGCCTCTGATCACCCCCAACATGTTATTGCCTCTGATCACCAAAGCCTGGTCCGAGGATACTCGACCAGGCTTCATCCCCCGACCAGGCTTCATCCCCCCCAACAGGACCAGGCTTCATCCCCGGACCAGGCTTCATCCCCCGGACCAGGCTTCATCCCCCCGGACCAGGCTTCATCCCCCCCCGGACCAGGCTTCATCCCCGGACCAGGCTTCATCCCCCGGACCAGGCTTCATCCCCCCGGACCAGGCTTCATCCCCCCTCGGACCAGGCTTCATCCTCGGACCAGGCTTCATCCCTCGGACCAGGCTTCATCCCCTCGGACCAGGCTTCATCCCCCTCGGACCAGGCTTCATCCCCCCTCGGACCAGGCTTCATCCCCCCCTCGGACCAGGCTTCATCCCCCCCACTCGGACCAGGCTTCATCCTCGGACCAGGCTTCATCCCTCGGACCAGGCTTCATCCCCTCGGACCAGGCTTCATCCCCCTCGGACCAGGCTTCATCCCCCCTCGGACCAGGCTTCATCCCCCCCTCGGACCAGGCTTCATCCCCCCCCCTCGGACCAGGCTTCATCCCTCGGACCAGGCTTCATCCCCTCGGACCAGGCTTCATCCCCCTCGGACCAGGCTTCATCCCCCCTCGGACCAGGCTTCATCCCCCCCTCGGACCAGGCTTCATCCCCCCTCCTCGGACCAGGCTTCATCCTCGGACCAGGCTTCATTCCTCGGACCAGGCTTCATCTCCTCGGACCAGGCTTCATCCTCCTCGGACCAGGCTTCATCCCTCCTCGGACCAGGCTTCATCCCCTCCTCGGACCAGGCTTCATCCCCCTCCTCGGACCAGGCTTCATCCCCCCATCCTCGGACCAGGCTTCATCCTCGGACCAGGCTTCAATCCTCGGACCAGGCTTCATCATCCTCGGACCAGGCTTCATCCATCCTCGGACCAGGCTTCATCCCATCCTCGGACCAGGCTTCATCCCCATCCTCGGACCAGGCTTCATCCCCCTATCCTCGGACCAGGCTTCATATCCTCGGACCAGGCTTCATTATCCTCGGACCAGGCTTCATCTATCCTCGGACCAGGCTTCATCCTATCCTCGGACCAGGCTTCATCCCTATCCTCGGACCAGGCTTCATCCCCTATCCTCGGACCAGGCTTCATCCCCCGTATCCTCGGACCAGGCTTCATCGTATCCTCGGACCAGGCTTCATCCAGTATCCTCGGACCAGGCTTCATCGAGTATCCTCGGACCAGGCTTGAGTATCCTCGGACCAGGCTTCATCCCCAGAGTATCCTCGGACCAGGCTTAGAGTATCCTCGGACCAGGCTTCATCCCCCGAGAGTATCCTCGGACCAGGCTTGAGAGTATCCTCGGACCAGGCTTCAAGAGAGTATCCTCGGACCAGGCTTTAGAGAGTATCCTCGGACCAGGCTGATCATAGAGAGTATCCTCGGACCAAGTGATCATAGAGAGTATCCTTCAAGTGATCATAGAGAGTATCTATCCTCGATCCAGACAACATTATCCTCGATCCAGACAACATTTATCCTCGATCCAGACAACATTCCCTGGATCGAGGATATTATAGATATCTGGATCGAGGATATTATAGTCTGGATCGAGGATATTATAGATTGTCTGGATCGAGGATATTATGTCTGGATCGAGGATATTATTTGTCTGGATCGAGGATATTGTTGTCTGGATCGAGGATGTTGTCTGGATCGAGGATAGTTGTCTGGATCGAGGATATTTGTTGTCTGGATCGAGGATGTTGTCTGGATCGAGGATTGTTGTCTGGATCGAGGATATGTTGTCTGGATCGAGGATATATGTTGTCTGGATCGAGGATGTTGTCTGGATCGAGGAATGTTGTCTGGATCGAGGATATGTTGTCTGGATCGAGGATAATGTTGTCTGGATCGAGGATATATGTTGTCTGGATCGAGGATATTATGTTGTCTGGATCGAGGATATTAATGTTGTCTGGATCGAGGATATTATAGATAAATGTTGTCTGGATCGAGAATGTTGTCTGGATCGAGGAATGTTGTCTGGATCGAGGAAATGTTGTCTGGATCGAGGATAATGTTGTCTGGATCGAGGATAAATGTTGTCTGGATCGAGGATATTAATGTTGTCTGGATCGAGGATATTAGAATGTTGTCTGGATCGAGAATGTTGTCTGGATCGAGGAATGTTGTCTGGATCGAGGGAATGTTGTCTGGATCGAGGAGAATGTTGTCTGGATCGAGGATGAATGTTGTCTGGATCGAGGATAGAATGTTGTCTGGATCGAGGATATGAATGTTGTCTGGATCGAGGATATTGGAATGTTGTCTGGATCGGGAATGTTGTCTGGATCGAGGAATGTTGTCTGGATCGAGGGAATGTTGTCTGGATCGAGGGGAATGTTGTCTGGATCGAGGAGGAATGTTGTCTGGATCGAGGATGGAATGTTGTCTGGATCGAGGATAGGAATGTTGTCTGGATCGAGGATATGGAATGTTGTCTGGATCGAGGATATTGGAATGTTGTCTGGATCGAGGATATTAGGAATGTTGTCTGGATCGAGGATATTATGGAATGTTGTCTGGATCGAGGATATTATAGGAATGTTGTCTGGATCGAGGATATTATAGAGGAATGTTGTCTGGATCGAGGATATTATAGATAGGGAATGTTGTCTGGATCGAGGGGAATGTTGTCTGGATCGAGGGGGAATGTTGTCTGGATCGAGGAGGGAATGTTGTCTGGATCGAGGATGGGAATGTTGTCTGGATCGAGGATACTCAACTGAAATAGCTTAACCCTCAACTGAAATAGCTTAACCCCTCAACTGAAATAGCTTAACCCTCTCAACTGAAATAGCTTAACCCTCGGGGAATGTTGTCTGGATCGAGGGGAATGTTGTCTGGATCGAGGGGGAATGTTGTCTGGATCGAGGGGGGAATGTTGTCTGGATCGAGGAAGGGGAATGTTGTCTGGATCGTCAACTGAAATAGCTTAACCTCAACTGAAATAGCTTAACCCTCAACTGAAATAGCTTAACCCTCAACTGAAATAGCTTAACCCTGAGGGGAATGTTGTCTGGATCGAGGGGAATGTTGTCTGGATCGAGGAAACTGAAATAGCTTAACCCTAACTGAAATAGCTTAACCCTCATTGAGGGGAATGTTGTCTGGATGAGGGGAATGTTGTCTGGATTTGAGGGGAATGTTGTCTGGTTGAGGGGAATGTTGTCTGGATGTTGAGGGGAATGTTGTCTGTTGAGGGGAATGTTGTCTGGATCAGTTGAGGGGAATGTTGTCTGGTTAACCCTCATGATAATCGATCCTCATGATAATCGATCTTAGCAGGGTTAAGCTATTTCAGTTGAGGAGGGTTAAGCTATTTCAGTTGAGGTCATGATAATCGATCTTAGCACATGATAATCGATCTTAGCAGAATGATAATCGATCTTAGCAGATGATAATCGATCTTAGCAGATTGATAATCGATCTTAGCAGATTGATAATCGATCTTAGCAGATTCATGAGGGTTAAGCTATTTCAGTTAATCGATCTTAGCAGATTCAGATCGATTATCATGAGGGTTTAAGATCGATTATCATGATAAGATCGATTATCATGAGGTAAGATCGATTATCATGAGGGTAAGATCGATTATCATGAGGGTCTAAGATCGATTATCATGAGGGGCTAAGATCGATTATCATGAGGCTAAGATCGATTATCATGAGGTGCTAAGATCGATTATCATGATGCTAAGATCGATTATCATGAGTTCACAAATTTTTGTTGTAGATTCACAAATTTTTGTTGTAGAGTCACAAATTTTTGTTGTAGAGTCACAAATTTTTGTTGTAGAGAACAAATTTTTGTTGTAGAGAGTGATGAATCTGCTAAGATCGATTACAAATTTTTGTTGTAGAGAGTCAAATTTTTGTTGTAGAGAGTGTTGTGAATCTGCTAAGATCGAATTTTTGTTGTAGAGAGTGATTTTGTGAATCTGCTAAGATCTTTGTGAATCTGCTAAGATCGATTTGTGAATCTGCTAAGATCGATTTTTGTTGTAGAGAGTGATAGTTTTGTTGTAGAGAGTGATAGAAAATTTGTGAATCTGCTAAGATTTGTTGTAGAGAGTGATAGATTGTTGTAGAGAGTGATAGAGTTGTTGTAGAGAGTGATAGAGGTGTTGTAGAGAGTGATAGAGGAGTTGTAGAGAGTGATAGAGGAACAAAAATTTGTGAATCTGCTTTGTAGAGAGTGATAGAGGAGTTGTAGAGAGTGATAGAGGAGAGAACAAAAATTTGTGAATCTGCTGTAGAGAGTGATAGAGGAGATGTAGAGAGTGATAGAGGAGAGACAACAAAAATTTGTGAATCTGCTGTAGAGAGTGATAGAGGAGTAGAGAGTGATAGAGGAGAGAGAGAGTGATAGAGGAGAGAGGAGAGTGATAGAGGAGAGAGAAGAGTGATAGAGGAGAGAGAGGAGTGATAGAGGAGAGAGAGAGGTGATAGAGGAGAGAGAGAGAGATAGAGGAGAGAGAGAGAGAGATAGAGGAGAGAGAGAGAGAGGAGAGGAGAGAGAGAGAGAGGTAGGAGAGAGAGAGAGAGGTTGGTGAGAGAGAGGTTGGTGAATGGTGAGAGAGGTTGGTGAATGGTGAGAGAGGTTGGTGAATGGTGAGAGAGGTTGGTGAATGGTGAAGAGAGGTTGGTGAATGGTGATGAGAGGTTGGTGAATGGTGATGAGAGGTTGGTGAATGGTGATGAGAGGTTGGTGAATGGTGATGAAGAGGTTGGTGAATGGTGATGATCTCTCTCTCTCTCCTCTATCACTGAGGTTGGTGAATGGTGATGATGAGGTTGGTGAATGGTGATGATGGAGGTTGGTGAATGGTGATGATTCTCTCTCTCTCTCCTCTACTCTCTCTCTCTCTCCTCGTTGGTGAATGGTGATGATGGGTTGGTGAATGGTGATGATGGTTTGGTGAATGGTGATGATGGTTTGGTGAATGGTGATGATGGTGGTGAATGGTGATGATGGTGTTTGAATGGTGATGATGGTGTTAATGGTGTTATGATGAGGGAATGATGGTGTTATGATGAGGGAATGATCATCACCATTCACCAACCTTGGTGTTATGATGAGGGAATGAGGTGTTATGATGAGGGAATGAGGTGTTATGATGAGGGAATGATTTATGATGAGGGAATGATGAGAGGGAATGATGAGTGGCGGAATTCCCTCATCATAACACCATATCATTCCCTCATCATAACACCATAGACGAAGATGGGCTTTTAATAAGACACAACAGAAACAGGTCGTCACGACCTGTTTCTGTTGTGTCAGGGTTTAGGAATGACGACCTATCGGTAAGAAAATCTACTCTTACCGATTCGTGGATTAGClick to see list of reads 78,010 - 78,219 78,015 - 78,224 78,018 - 78,227 78,057 - 78,266 78,154 - 78,363 78,209 - 78,418 78,414 - 78,623 78,788 - 78,997 78,897 - 79,106 78,940 - 79,149 79,007 - 79,216 79,032 - 79,241 79,033 - 79,242 79,034 - 79,243 79,054 - 79,263 79,056 - 79,265 79,057 - 79,266 79,077 - 79,286 79,078 - 79,287 79,081 - 79,290 79,084 - 79,293 79,086 - 79,295 79,087 - 79,296 79,088 - 79,297 79,090 - 79,299 79,091 - 79,300 79,092 - 79,301 79,093 - 79,302 79,095 - 79,304 79,096 - 79,305 79,097 - 79,306 79,103 - 79,312 79,105 - 79,314 79,116 - 79,325 79,117 - 79,326 79,118 - 79,327 79,119 - 79,328 79,122 - 79,331 79,124 - 79,333 79,125 - 79,334 79,128 - 79,337 79,129 - 79,338 79,143 - 79,352 79,154 - 79,363 79,198 - 79,407 79,382 - 79,173 79,231 - 79,022 79,217 - 79,008 79,161 - 78,952 79,092 - 78,883 79,091 - 78,882 79,087 - 78,878 79,083 - 78,874 79,080 - 78,871 79,074 - 78,865 79,073 - 78,864 79,071 - 78,862 79,069 - 78,860 79,035 - 78,826 79,034 - 78,825 79,033 - 78,824 79,032 - 78,823 79,031 - 78,822 79,030 - 78,821 79,029 - 78,820 79,028 - 78,819 79,027 - 78,818 79,026 - 78,817 79,025 - 78,816 79,023 - 78,814 79,021 - 78,812 78,960 - 78,751 78,957 - 78,748 78,956 - 78,747 78,955 - 78,746 78,954 - 78,745 78,953 - 78,744 78,952 - 78,743 78,951 - 78,742 78,950 - 78,741 78,335 - 78,126 78,322 - 78,113 78,314 - 78,105 78,297 - 78,088 78,290 - 78,081 78,277 - 78,068 78,276 - 78,067 78,197 - 77,988 78,160 - 77,951 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-MIR165a 1 c miRNA 79,037 78,927 1 No splice variant annotated
    Predicted function: miRNA