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' |
gtgaagctcaagttcatcagaacatgttaaataccaccatatctccataatttgtgactcactgttgctgttctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAACAAGAGAGACGCCAAGTTCTACGGCAACATGTTCGCGAAATGGAGGAAG
species | Oryza sativa |
transcript | LOC_Os04g28420.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|218489779|gb|FG969223.1|FG969223
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|3762939|gb|AU029691.1|AU029691
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: TANCAGAGTTGGATGTCCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACCAEST: gi|86506588|gb|CI149221.1|CI149221
genomic: TAGCAGAGTTGGATGT-CAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTA-CA
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|89163178|gb|CI100068.1|CI100068
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|2312019|gb|C28174.1|C28174
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|218488949|gb|FG960628.1|FG960628
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|86484135|gb|CI126768.1|CI126768
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: AGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|86528735|gb|CI168941.1|CI168941
genomic: AGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: CTAGCAGAGTTGGGTGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|86485367|gb|CI128000.1|CI128000
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|89181155|gb|CI045238.1|CI045238
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|89184352|gb|CI046917.1|CI046917
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: ACTGGAGATTGATCCTGACNACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|86528371|gb|CI168577.1|CI168577
genomic: ACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: CTAGCAGAGTTGGGTGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|86832739|gb|CI345153.1|CI345153
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|88569754|gb|CI660929.1|CI660929
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACEST: gi|88849661|gb|CI089767.1|CI089767
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGAC
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|15847220|gb|BI795496.1|BI795496
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGTAAGATCAAGGAGTACAEST: gi|86427218|gb|CI072315.1|CI072315
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAG-AAGATCAAGGAGTACA
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|8527213|gb|AU092028.1|AU092028
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|88989314|gb|CI043813.1|CI043813
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|10794673|gb|AU108639.1|AU108639
genomic: CTAGCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: TAGCCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGANCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAAEST: gi|86483317|gb|CI125950.1|CI125950
genomic: TAG-CAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
EST: GCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAG GGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
genomic: GCAGAGTTGGATGTCAAGAAAGCACTGGAGATTGATCCTGACAACAGgtgaagctca ... ctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAA
taaataccaccatatctccataatttgtgactcactgttgctgttctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAACAAGAGAGACGCCAAGTTCTACGGCAACATGTTCGCGAAATGGAGGAAG
gactcac putative branch site (score: 2)
ttgctgttctcttctc putative PPT
ataatttgt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtgaagctcaagttcatcagaacatgttaaataccaccatatctccataatttgtgactcactgttgctgttctcttctcagGGATGTGAAGATGGTGTATAAGACATTGAAGGAGAAGATCAAGGAGTACAACAAGAGAGACGCCAAGTTCTACGGCAACATGTTCGCGAAATGGAGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA