1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' | 8 5' 3' | 9 5' 3' | 10 5' 3' |
gttttgcatgatgttcctttttacttcttttgtaacacaccgaaatttgtactgacatatcaattatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAGACTTAAATGTCTCCTGGAAGAAGAATGGACAGTACAACATGAAATGCA
species | Oryza sativa |
transcript | LOC_Os03g17980.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
EST: ATGGGCTCTTGGACTTCAG TCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAEST: gi|29672696|gb|CB668971.1|CB668971
genomic: ATGGGCTCTTGGACTTCAGgttttgcatg ... tatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAA
EST: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAG TCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAEST: gi|2317410|gb|C22464.1|C22464
genomic: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAGgttttgcatg ... tatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAA
EST: CCTGTTGAAAGAAAATGGGCTCTTGGACTTCAG TCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAEST: gi|218504457|gb|FG953019.1|FG953019
genomic: CCTGTTGAAAGAAAATGGGCTCTTGGACTTCAGgttttgcatg ... tatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAA
EST: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAG TCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAEST: gi|5038573|gb|AU070683.1|AU070683
genomic: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAGgttttgcatg ... tatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAA
EST: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAG TCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAEST: gi|29673828|gb|CB670103.1|CB670103
genomic: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAGgttttgcatg ... tatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAA
EST: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAG TCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAEST: gi|218478287|gb|FG959067.1|FG959067
genomic: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAGgttttgcatg ... tatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAA
EST: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAG TCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAEST: gi|29663427|gb|CB659702.1|CB659702
genomic: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAGgttttgcatg ... tatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAA
EST: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAG TCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAEST: gi|86492611|gb|CI135244.1|CI135244
genomic: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAGgttttgcatg ... tatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAA
EST: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAG TCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAEST: gi|29614996|gb|CB620009.1|CB620009
genomic: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAGgttttgcatg ... tatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAA
EST: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAG TCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAEST: gi|29672731|gb|CB669006.1|CB669006
genomic: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAGgttttgcatg ... tatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAA
EST: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAG TCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAEST: gi|29616520|gb|CB621532.1|CB621532
genomic: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAGgttttgcatg ... tatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAA
EST: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAG TCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAA
genomic: GTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAGgttttgcatg ... tatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAA
tttacttcttttgtaacacaccgaaatttgtactgacatatcaattatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAGACTTAAATGTCTCCTGGAAGAAGAATGGACAGTACAACATGAAATGCA
tactgac putative branch site (score: 87)
atatcaattat TA-rich tract
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gttttgcatgatgttcctttttacttcttttgtaacacaccgaaatttgtactgacatatcaattatccaacagTCACGAGCTCAACCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTCAAGACTTAAATGTCTCCTGGAAGAAGAATGGACAGTACAACATGAAATGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG