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.



GCATGATTCATGAACTTCAAGCCAAATGATTCATGAACTTCAAGCCAAACTATGATTCATGAACTTCAAGCCAAACTCATGAACTTCAAGCCAAACTCACCTTGAGTTTGGCTTGAAGTTCATGATATCCAAGATAAAACTCTACTCACATAACGGCTGGTCAAACGATGTACCTTCTGGGAGTCATGTCAACTTAACATGTCAACTTAACCAAACGGCCAACTTAACCAAACGGCCTGTTTATGTATGCTTACGGACAAGTATGCTTACAGGAACGCAAAGCTAAAGAAGATTTTGTTTCAGAGTGACTATATGAGAGAAAAAGAACTTTAAGACATATGAGAGAAAAAGAACTTTACTATTTCGTCTCTCGGTTAAATAGTAATCTGTAGAAAGACATAGGTTACCGGTGGTAGAGAAGAGACTTGGTTACCGGTGGTAGAGAAGATTACCGGTGGTAGAGAAGAGACTTGCACATACCGGTGGTAGAGAAGAGACTACCGGTGGTAGAGAAGAGACTTACCGGTGGTAGAGAAGAGACTTGCACCGGTGGTAGAGAAGAGACTTCGGTGGTAGAGAAGAGACTTGGTAGAGAAGAGACTTGCAGTAGAGAAGAGACTTGCACAATTCGCTTGGCAGGGACTCTTATTCGCTTGGCAGGGACTCTTAACCATTCGCTTGGCAGGGACTCTTAACCGAATTCGCTTGGCAGGGACTCTTAACCGAATTCGCTTGGCAGGGACTCTTAACCGCTTGGCAGGGACTCTTAACCGAATAGCTTGGCAGGGACTCTTAACCGAGCTTGGCAGGGACTCTTAACCGAATATTTCTTGGCAGGGACTCTTAACCGATTGGCAGGGACTCTTAACCGCAGGGACTCTTAACCGACGAATATTTTCTGCAAAACGGAAACGGAAGCTTGCTAGAGCATGTTTTGCAGAAAATATTCGGTTAAGAGTCCCTAAGCTTGCTAGAGCATGAAAAAAGATCCAGGCTAGAGCATGAAAAAAGATCCAGGAAGCATGAAAAAAGATCCAGGAGAAAAGATCCAGGAGAATCACTTAAAGATCCAGGAGAATCACTTGAACAAAGATCCAGGAGAATCACTTGAACACCAGGAGAATCACTTGAACATCAGGAGAATCACTTGAACATATCACTTGAACATCCATGAACACTCACTTGAACATCCATGAACACTCTCTTGAACATCCATGAACACTCTTGAACATCCATGAACACTCTTATGTATAATGTGTAATGGTAGTAGTTAGTAGTTAAGGTTATGGTTTGGTATTGTAGTTAAGGTTATGGTTTGGTATTGTTCCAGGTTATGGTTTGGTATTGTTCCTGCGTTTATGAAACGAAAACTGTACGTCTAAACTGTACGTCTACAAGAAAACAACTAAACCAAAACCAAGATGTTTATAAACCTGAAAAAAATAGAACCTAAAATAGAACCTAAGTGAAACTGAATGATCAGATTTTTGTTTTTGCACTCAAACTTCTCTTCTTTTGGATGTCAGACTTTCCTTCTCTTCTTTTGGATGTTTCCTTCTCTTCTTTTGGATGAAGGTCAACTTGCCGGACACCATGGCTCTGTTTCCTTCTCTTCTTGACCTTGGCTCTGTTTCCTTGACCTTGGCTCTGTTTCCTGTTGACCTTGGCTCTGTTTCCAGTTGACCTTGGCTCTGTTTCAAGTTGACCTTGGCTCTGAAGTTGACCTTGGCTCTGTAAGTTGACCTTGGCTCTGTTCAAGTTGACCTTGGCTCTCAAGTTGACCTTGGCTCTGCAAGTTGACCTTGGCTCTGTCAAGTTGACCTTGGCTCTGTTCAAGTTGACCTTGGCTCTGTTTGCAAGTTGACCTTGGCTCGCAAGTTGACCTTGGCTCTGCAAGTTGACCTTGGCTCTGGCAAGTTGACCTTGGCTCTGTGCAAGTTGACCTTGGCTCTGTTGCAAGTTGACCTTGGCTCTGTTTGGCAAGTTGACCTTGGCTGGCAAGTTGACCTTGGCTCGGCAAGTTGACCTTGGCTCTGGCAAGTTGACCTTGGCTCTGGGCAAGTTGACCTTGGCTCTGTGGCAAGTTGACCTTGGCTCTGTTCGGCAAGTTGACCTTGGCCGGCAAGTTGACCTTGGCTCGGCAAGTTGACCTTGGCTCCGGCAAGTTGACCTTGGCTCTCGGCAAGTTGACCTTGGCTCTGCGGCAAGTTGACCTTGGCTCTGTCGGCAAGTTGACCTTGGCTCTGTTCCGGCAAGTTGACCTTGGCCGGCAAGTTGACCTTGGCCCGGCAAGTTGACCTTGGCTCCGGCAAGTTGACCTTGGCTCCCGGCAAGTTGACCTTGGCTCTCCGGCAAGTTGACCTTGGCTCTGCCGGCAAGTTGACCTTGGCTCTGTCCGGCAAGTTGACCTTGGCTCTGTTCCGGCAAGTTGACCTTGGCTCTGTTTTCCGGCAAGTTGACCTTGTCCGGCAAGTTGACCTTGGTCCGGCAAGTTGACCTTGGCTCCGGCAAGTTGACCTTGGCTTCCGGCAAGTTGACCTTGGCTCTCCGGCAAGTTGACCTTGGCTCTTCCGGCAAGTTGACCTTGGCTCTGTCCGGCAAGTTGACCTTGGCTCTGTTCCGGCAAGTTGACCTTGGCTCTGTTTCCGGCAAGTTGACCTTGGCTCTGTTTGTCCGGCAAGTTGACCTTGGCGTCCGGCAAGTTGACCTTGGCTGTCCGGCAAGTTGACCTTGGCTCGTCCGGCAAGTTGACCTTGGCTCTGTCCGGCAAGTTGACCTTGGCTCTGTGTCCGGCAAGTTGACCTTGGCTGTCCGGCAAGTTGACCTTGGCTCGTGTCCGGCAAGTTGACCTTGGCGTGTCCGGCAAGTTGACCTTGGCTGGTGTCCGGCAAGTTGACCTTGGGGTGTCCGGCAAGTTGACCTTGGCTCTGGTGTCCGGCAAGTTGACCTTGGCTTCTGGTGTCCGGCAAGTTGACCTTGGCGATTCTGGTGTCCGGCAAGTTGACCTTGGGATTCTGGTGTCCGGCAAGTTGACCTTGGCAATTAACTGATTCTGGTGTCCGGCATAATTAACTGATTCTGGTGGAATCTAATTAACTGATTCTGGTGTCCGAGGATGACTTGCCGGGTTTTTTTACCAATGAAAAGGATGACTTGCCGGGTCCAAGGATGACTTGCCGGGCCAAGGATGACTTGCCGGCCAAGGATGACTTGCCGGGCCAAGGATGACTTGCCGGGGCCAAGGATGACTTGCCGGGTAGCCAAGGATGACTTGCCAGCCAAGGATGACTTGCCGAGCCAAGGATGACTTGCCGGAGCCAAGGATGACTTGCCGGGAGCCAAGGATGACTTGCCGGGTTAGCCAAGGATGACTTGCCGGGTTTGAGCCAAGGATGACTTGCGAGCCAAGGATGACTTGCCGAGCCAAGGATGACTTGCCGGAGCCAAGGATGACTTGCCGGGAGCCAAGGATGACTTGCCGGGTTGAGCCAAGGATGACTTGTGAGCCAAGGATGACTTGCTGAGCCAAGGATGACTTGCCTGAGCCAAGGATGACTTGCCGTGAGCCAAGGATGACTTGCCGGTGAGCCAAGGATGACTTGCCGGGTGAGCCAAGGATGACTTGCCGGGTTGAGCCAAGGATGACTTGCCGGGTTTTGAGCCAAGGATGACTTTTGAGCCAAGGATGACTTGTTGAGCCAAGGATGACTTGCTTGAGCCAAGGATGACTTGCCTTGAGCCAAGGATGACTTGCCGTTGAGCCAAGGATGACTTGCCGGTTGAGCCAAGGATGACTTGCCGGGGTTGAGCCAAGGATGACTTGTTGAGCCAAGGATGACTTGCCGTTGAGCCAAGGATGACTTGCCGGTTGAGCCAAGGATGACTTGCCGGAGGTTGAGCCAAGGATGACTTAGGTTGAGCCAAGGATGACTTGCCAGAGAATGAGGTTGAGCCAAGTAGAGAATGAGGTTGAGCCAAATAGAGAATGAGGTTGAGCCAGGAAGAATAGAGAATGAGGTTGGAAGAATAGAGAATGAGGTTGGAAGAATAGAGAATGAGGTTTGGAAGAATAGAGAATGAGGTTGAGCCAGTTGTATCAGAGGGTCTTGCAAGTTGTATCAGAGGGTCTTGCAAAGGACAATCTGAAATTTTCAATClick to see list of reads 11,482,045 - 11,482,254 11,482,294 - 11,482,503 11,482,477 - 11,482,686 11,482,479 - 11,482,688 11,482,512 - 11,482,721 11,482,577 - 11,482,786 11,482,583 - 11,482,792 11,483,157 - 11,482,948 11,483,156 - 11,482,947 11,483,135 - 11,482,926 11,483,128 - 11,482,919 11,483,127 - 11,482,918 11,483,126 - 11,482,917 11,483,118 - 11,482,909 11,483,115 - 11,482,906 11,483,114 - 11,482,905 11,483,113 - 11,482,904 11,483,112 - 11,482,903 11,483,111 - 11,482,902 11,483,055 - 11,482,846 11,483,054 - 11,482,845 11,483,053 - 11,482,844 11,483,052 - 11,482,843 11,483,051 - 11,482,842 11,483,050 - 11,482,841 11,483,049 - 11,482,840 11,483,047 - 11,482,838 11,483,046 - 11,482,837 11,483,045 - 11,482,836 11,483,038 - 11,482,829 11,483,029 - 11,482,820 11,482,443 - 11,482,234 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
AT4G21595 4 c miRNA 11,483,257 11,482,879 1 No splice variant annotated
    Predicted function: MIR169G; miRNA