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.



AACAGATCATGGAGCGAAAAAAGAAATGATTGGGAAGTAGGCATGAGAAGTCGGGTTTCAGAGGGTGGAAAGATTGACGGAGATTGTGGAAGGGTTCAAAGATTGACGGATTTGAATAGACTCTAATGGCGGTTTTCGACTTCTTTGAATAGACTGATTTGGTTGTTAGATAAGGCCTCGGAGATTTGGTTGTTAGATTTTTTTTATTAGGGTTTTGGATCACAGATCTCTCCAAAACCCTAGGGAGAGATGGTGATTGAGGGGAGAGATGGTGATTGAGGAAAGGAATGCAACAGAGAAAACAATGCAACAGAGAAAACTGCAACAGAGAAAACTGACAGAACAGAGAAAACTGACAGAAGAGAGAAAACTGACAGAAGAGAGTGAGCAGAAAACTGACAGAAGAGAGTGAGCACAAAACTGACAGAAGAGAGTGAAAAACTGACAGAAGAGAGTGAGCAAAACTGACAGAAGAGAGTGAGCAAAAACTGACAGAAGAGAGTGAGCACAAAACTGACAGAAGAGAGTGAGCACAAAACTGACAGAAGAGAGTGAGCAAAACTGACAGAAGAGAGTGAGCACAAACTGACAGAAGAGAGTGAGCACAAACTGACAGAAGAGAGTGAGAACTGACAGAAGAGAGTGAGCAACTGACAGAAGAGAGTGAGCAAACTGACAGAAGAGAGTGAGCACAACTGACAGAAGAGAGTGAGCACAACTGACAGAAGAGAGTGAGACTGACAGAAGAGAGTGAGCACTGACAGAAGAGAGTGAGCAACTGACAGAAGAGAGTGAGCACACTGACAGAAGAGAGTGAGCACAACTGACAGAAGAGAGTGAGCACATCTGACAGAAGAGAGTGAGCTGACAGAAGAGAGTGAGCCTGACAGAAGAGAGTGAGCACTGACAGAAGAGAGTGAGCACCTGACAGAAGAGAGTGAGCACACTGACAGAAGAGAGTGAGCACATTGACAGAAGAGAGTGAGCTGACAGAAGAGAGTGAGCATGACAGAAGAGAGTGAGCACTGACAGAAGAGAGTGAGCACATGACAGAAGAGAGTGAGCACATTGACAGAAGAGAGTGAGCACATGTGACAGAAGAGAGTGAGCACATGCAGACAGAAGAGAGTGAGCAGACAGAAGAGAGTGAGCACGACAGAAGAGAGTGAGCACAGACAGAAGAGAGTGAGCACATACAGAAGAGAGTGAGCACACAGAAGAGAGTGAGCACAACAGAAGAGAGTGAGCACATACAGAAGAGAGTGAGCACATGCAGAAGAGAGTGAGCACACAGAAGAGAGTGAGCACATGCCAGAAGAGAGTGAGCACATGCAGGAGAAGAGAGTGAGCACATGAGAAGAGAGTGAGCACATGCGAAGAGAGTGAGCACATGCAGGCAAGAGAGTGAGCACATGCAGGAGAGAGTGAGCACATGCAGGCACTGAGTGAGCACATGCAGGCACTGTGAGTGAGCACATGCAGGCACTGTTAGTGAGCACATGCAGGCACTGAGTGAGCACATGCAGGCACTGTTAGTGAGCACATGCAGGCACTGTCTCACTCTCTTCTGTCAGTTTTGCTCACTCTCTTCTGTCAGTTGTGCTCACTCTCTTCTGTCCACTGTTATGTGTCTATAACTTTGCGAGTGCCTGCATGTGCTCACTCGTTATGTGTCTATAACTTTGCGTAACAGTGCCTGCATGTGCTCACTCATGTGTCTATAACTTTGCGTGTGCTAACTTTGCGTGTGCGTGCTCACCTGTGCGTGCTCACCTCTCTTTTGTGCGTGCTCACCTCTCTTTCGCGTGCTCACCTCTCTTTCTGTCTGCTCACCTCTCTTTCTGTGCTCACCTCTCTTTCTGTTGCTCACCTCTCTTTCTGTCTGCTCACCTCTCTTTCTGTCATGCTCACCTCTCTTTCTGTCAGTGCTCACCTCTCTTTCTGTCAGTTGCTCACCTCTCTTTCTGTCAGTTGCTCACCTCTCTTTCTGTGCTCACCTCTCTTTCTGTCGCTCACCTCTCTTTCTGTCAGCTCACCTCTCTTTCTGTCAGGCTCACCTCTCTTTCTGTCAGTGCTCACCTCTCTTTCTGTCAGTTCTCACCTCTCTTTCTGTCACTCACCTCTCTTTCTGTCAGTCTCACCTCTCTTTCTGTCAGTTTCACCTCTCTTTCTGTCAGTCACCTCTCTTTCTGTCAGTACCTCTCTTTCTGTCAGTGAGGTGAGCACGCACACGCAGAGGTGAGCACGCACACGCAAGACAGAAAGAGAGGTGAGCAACTGACAGAAAGAGAGGTGAGCATTGCCTATCTCTGCCTGCTTGACCTGCCTATCTCTGCCTGCTTGACCAGAGATAGGCAACTGACAGAAAAGGCAGAGATAGGCAACTGACAGAACCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTCTCTCTCTCTCTCTCTCTCTCATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCATCTCTCTCTCTCTCTCTCTCTCAACTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTCTCTCTCTCTCTCTCTCTCATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCACTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTCTCTCTCTCTCTCTCTCATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCAAGAGAGAGAGAGAGAGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAGAGAGAGAGAGAGAGAGAGGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGAGAGAGAGAGAGAGAGAGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAGAGAGAGAGAGAGAGAGAGAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGAGAGAGAGAGAGAGAGAGAGAGGGAGAGAGAGAGAGAGAGAGAGAGGTTGAGAGAGAGAGAGAGAGATGAGAGAGAGAGAGAGAGAGAGATTAGTTGTGTGTTTTTCTTGGAATTGGTGTATGATGATTGTGTATGATGATTGTTGTTCGGTTATAGATCAAAGACCTTTTAAGACCGTCGCTTTTGAAATTGATGAATAGTCTTTCAGAATGTTGGCTTTATGTAGCAGACACACACACACACGGACTClick to see list of reads 15,074,821 - 15,075,030 15,074,907 - 15,075,116 15,074,909 - 15,075,118 15,074,932 - 15,075,141 15,074,940 - 15,075,149 15,074,942 - 15,075,151 15,074,943 - 15,075,152 15,074,944 - 15,075,153 15,074,945 - 15,075,154 15,074,946 - 15,075,155 15,074,947 - 15,075,156 15,074,948 - 15,075,157 15,074,956 - 15,075,165 15,074,957 - 15,075,166 15,074,998 - 15,075,207 15,075,004 - 15,075,213 15,075,005 - 15,075,214 15,075,006 - 15,075,215 15,075,596 - 15,075,805 15,075,013 - 15,074,804 15,074,975 - 15,074,766 15,074,963 - 15,074,754 15,074,961 - 15,074,752 15,074,784 - 15,074,575 15,074,733 - 15,074,524 15,074,666 - 15,074,457 15,074,658 - 15,074,449 15,074,500 - 15,074,291 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
AT4G30972 4 w miRNA 15,074,945 15,075,024 1 No splice variant annotated
    Predicted function: MIR156B; miRNA