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' | 11 5' 3' | 12 5' 3' |
...cacctcatgttgtttctgccacattatttgttttcctttatttccataaaaccatatcatgtatcataaagacgcatctcttttgcttatgtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAGGTGGTTTGTTTAGCTGGCTTCTTGGGGAGAAGTCAAGCCAATTGCCTC
species | Oryza sativa |
transcript | LOC_Os01g53700.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88426420|gb|CI576662.1|CI576662
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|33684443|gb|CF312682.1|CF312682
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88370337|gb|CI587727.1|CI587727
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|117222072|gb|CT852607.1|CT852607
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACCTGCGCTCTCTCAAG AGATACAGTTCTAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88411046|gb|CI606265.1|CI606265
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88738586|gb|CI762094.1|CI762094
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88364211|gb|CI612160.1|CI612160
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGAAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88392412|gb|CI612886.1|CI612886
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88359996|gb|CI608510.1|CI608510
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|33681307|gb|CF309546.1|CF309546
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88364616|gb|CI612431.1|CI612431
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88430305|gb|CI567324.1|CI567324
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88316412|gb|CI621651.1|CI621651
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGGAGAGATGTACCGCATCGCCGGGAGCCAATTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88402213|gb|CI615056.1|CI615056
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|163919795|gb|EG711485.1|EG711485
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|163922995|gb|EG712768.1|EG712768
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|58587739|gb|CF986047.1|CF986047
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACCTGCGCTCTCTCAAG AGATACAGTTCTAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88294602|gb|CI602322.1|CI602322
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88402185|gb|CI615028.1|CI615028
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATTTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88364158|gb|CI610502.1|CI610502
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATAAAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88401660|gb|CI588601.1|CI588601
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGAAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTAAAAGTGTTGTGAAGCAGTCTTCAEST: gi|33810480|gb|CF331128.1|CF331128
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|88398886|gb|CI601222.1|CI601222
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAEST: gi|40490205|gb|BX899810.1|BX899810
genomic: GCACGGCAGAGATGTACCGCATCGCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
EST: GCCGGGAGCCACTTGCGCTCTCTCAAG AGATACAGTTATAGTATGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
genomic: GCCGGGAGCCACTTGCGCTCTCTCAAGgtaccgcacc ... gtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCA
ataaaaccatatcatgtatcataaagacgcatctcttttgcttatgtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAGGTGGTTTGTTTAGCTGGCTTCTTGGGGAGAAGTCAAGCCAATTGCCTC
tatcataaa 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| cacctcatgttgtttctgccacattatttgttttcctttatttccataaaaccatatcatgtatcataaagacgcatctcttttgcttatgtggttgcagAGATACAGTTATAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAGGTGGTTTGTTTAGCTGGCTTCTTGGGGAGAAGTCAAGCCAATTGCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - -catgttg
- - - - - - -ttctgcc
- - - - - - - - - - - - - - - - - - - - - - - - aaaccat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cataaaga