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gtattttcgacatcgttttttattgtcagttgtacacaatggatgaccataactacaaagatccaagataaaccctccaagagagttgtgattcaccataatgtttgcattttcatggtattgcatgctaacaaaatatcatttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGGGCTCATCTCCAGGTGCAGGCAAGTTTGGATACCTGAAGATTCGACGGC
species | Oryza sativa |
transcript | LOC_Os02g04840.1 |
intron # | 27 |
splice site | 3' |
intron type | U2 |
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGTAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAEST: gi|87030698|gb|CI361912.1|CI361912
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAG-AAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGA
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|88471515|gb|CI408786.1|CI408786
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|86885994|gb|CI319842.1|CI319842
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTGGGAAAAAGTGGCTTGAAAACCACTCAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|86831406|gb|CI299464.1|CI299464
genomic: TTGGGAAAAA-TTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|86908654|gb|CI318973.1|CI318973
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|88266562|gb|CI377464.1|CI377464
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAACCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|88487497|gb|CI424768.1|CI424768
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|88222831|gb|CI220896.1|CI220896
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|88547409|gb|CI477699.1|CI477699
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|88849379|gb|CI089287.1|CI089287
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAGGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|86430531|gb|CI082954.1|CI082954
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTACTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|86889196|gb|CI315807.1|CI315807
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTG-TTTCGAGEST: gi|38475023|gb|CF959156.1|CF959156
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|88274276|gb|CI394682.1|CI394682
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|86871147|gb|CI328349.1|CI328349
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|88298302|gb|CI561095.1|CI561095
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|88558417|gb|CI488901.1|CI488901
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TGAANAGATTTTTGAG ATTCAGAAGAGATACAGAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|86873058|gb|CI328438.1|CI328438
genomic: TGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|88298112|gb|CI558517.1|CI558517
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGEST: gi|88995251|gb|CI036826.1|CI036826
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
EST: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAG ATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
genomic: TTTGTGTCATTGGGAAAAATTGCTTGAAAAGCAGTGAAGAGATTTTTGAGgtattttcga ... ttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAG
ataatgtttgcattttcatggtattgcatgctaacaaaatatcatttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGGGCTCATCTCCAGGTGCAGGCAAGTTTGGATACCTGAAGATTCGACGGC
tgctaac putative branch site (score: 1)
tttgttttc putative PPT
taacaaaatatcattt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtattttcgacatcgttttttattgtcagttgtacacaatggatgaccataactacaaagatccaagataaaccctccaagagagttgtgattcaccataatgtttgcattttcatggtattgcatgctaacaaaatatcatttgttttcagATTCAGAAGAGATACAAAGCTGCTACCGGGTACCTACCAATTGTTTTCGAGGGCTCATCTCCAGGTGCAGGCAAGTTTGGATACCTGAAGATTCGACGGC
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA