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' |
gtaaaataaaacaaaactatactatattatggtgtattggtgttgtgggaacttaattgtgctttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTATTGGAAAGAATGCACACATCAGAAAAGCAATAATTGACAAGAATGCTC
species | Oryza sativa |
transcript | LOC_Os09g12660.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|86496727|gb|CI139360.1|CI139360
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|24468914|gb|CA305863.1|CA305863
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: ACGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|87009864|gb|CI277365.1|CI277365
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|88222446|gb|CI222402.1|CI222402
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|88222920|gb|CI220666.1|CI220666
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGGCTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|87018057|gb|CI275871.1|CI275871
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|89164207|gb|CI101295.1|CI101295
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|88967313|gb|CI002497.1|CI002497
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|86517463|gb|CI157669.1|CI157669
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|58683758|gb|CK072445.1|CK072445
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|88957454|gb|CI095395.1|CI095395
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|29675781|gb|CB672056.1|CB672056
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|86494922|gb|CI137555.1|CI137555
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|218485015|gb|FG946141.1|FG946141
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: ACGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|86504993|gb|CI147626.1|CI147626
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|88232188|gb|CI230646.1|CI230646
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGGCGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|86520775|gb|CI160981.1|CI160981
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|87010148|gb|CI279245.1|CI279245
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|86500004|gb|CI142637.1|CI142637
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|86504994|gb|CI147627.1|CI147627
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTEST: gi|86500640|gb|CI143273.1|CI143273
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
EST: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAG ACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
genomic: AAGGCGCAGTGATAGAGGACTCTCTGCTAATGGGTGCAGACTATTATGAGgtaaaataaa ... ttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGT
atactatattatggtgtattggtgttgtgggaacttaattgtgctttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTATTGGAAAGAATGCACACATCAGAAAAGCAATAATTGACAAGAATGCTC
acttaat putative branch site (score: 4)
ctttttgttc putative PPT
aacttaatt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaaaataaaacaaaactatactatattatggtgtattggtgttgtgggaacttaattgtgctttttgttcagACGGAGACGGACAAGAAAGCCCTTTCTGAGACTGGTGGCATTCCCATTGGTATTGGAAAGAATGCACACATCAGAAAAGCAATAATTGACAAGAATGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA