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' | 13 5' 3' | 14 5' 3' | 15 5' 3' | 16 5' 3' | 17 5' 3' | 18 5' 3' | 19 5' 3' | 20 5' 3' |
...tcaaggagcactgttattgtctgtttttgcacaagcttatctgctttcatatagaaagcacctccatttaaccttttttttttttgctgtgaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATGGAAG
species | Oryza sativa |
transcript | LOC_Os02g25580.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|29689434|gb|CB685709.1|CB685709
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|88420813|gb|CI564649.1|CI564649
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|58691232|gb|CK079919.1|CK079919
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|88391359|gb|CI598177.1|CI598177
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|29634393|gb|CB639402.1|CB639402
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|33794771|gb|CF323265.1|CF323265
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACCAEST: gi|88367594|gb|CI568366.1|CI568366
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAAC-A
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCAAGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAAAATEST: gi|58611429|gb|CK039141.1|CK039141
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|88387048|gb|CI577834.1|CI577834
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|88415404|gb|CI586610.1|CI586610
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|58687532|gb|CK076219.1|CK076219
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|88394991|gb|CI607718.1|CI607718
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|88574709|gb|CI666478.1|CI666478
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|88325728|gb|CI648173.1|CI648173
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|88730327|gb|CI753941.1|CI753941
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|117231551|gb|CT846912.1|CT846912
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|88311860|gb|CI577466.1|CI577466
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|88324396|gb|CI566209.1|CI566209
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATEST: gi|88294730|gb|CI604602.1|CI604602
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
EST: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACC GTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
genomic: CTCCTCCCAGGGCGGGGACCACCGGAGCTTCCGCCAAATCACGCGAGACCgtaaggccac ... gaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACAT
ttcatatagaaagcacctccatttaaccttttttttttttgctgtgaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATGGAAG
atttaac putative branch site (score: 20)
atttaacctttttttt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| tcaaggagcactgttattgtctgtttttgcacaagcttatctgctttcatatagaaagcacctccatttaaccttttttttttttgctgtgaccatgcagGTTTATTATTTGAAATGCTCAGGTCAACTAGGAAACATTCAAAATCAACATGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - -gcactgt
- - - - - - - - - - - - ttttgca
- - - - - - - - - - - - - - - - - - - - ctgcttt
- - - - - - - - - - - - - - - - - - - - - - - - - atagaaag