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gtcagaatgatcaagagtactcatgacaagtctcaactggtggtgttcttttacatcatagctttcttgggccatattctcacacctgtatcctatacctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAAATGCTGAATACCATTATCAGAAATGAGAGAGATGGG
species | Oryza sativa |
transcript | LOC_Os07g01760.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|29671704|gb|CB667979.1|CB667979
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: GAGAGGAGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|58611970|gb|CK039682.1|CK039682
genomic: GAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|29614592|gb|CB619605.1|CB619605
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|29684690|gb|CB680965.1|CB680965
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGGCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|58589507|gb|CF987815.1|CF987815
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|29616796|gb|CB621808.1|CB621808
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|33381143|gb|CF196486.1|CF196486
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|58607278|gb|CK035311.1|CK035311
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: TTAGGAAGGAAGTCGCCGAGTTCATCGAGAGTGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGTGTGTGATGCEST: gi|13420574|gb|AU174664.1|AU174664
genomic: TTAGGAAGGAAGTCGCCGAGTTCATCGAGAG-GCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAG-GTGTGATGC
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|29615352|gb|CB620364.1|CB620364
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|29615840|gb|CB620852.1|CB620852
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|87005459|gb|CI285681.1|CI285681
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|58693367|gb|CK082054.1|CK082054
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|29676307|gb|CB672582.1|CB672582
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|33381689|gb|CF197032.1|CF197032
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|29616434|gb|CB621446.1|CB621446
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|29614424|gb|CB619437.1|CB619437
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|29636374|gb|CB641383.1|CB641383
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|58693563|gb|CK082250.1|CK082250
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|58687854|gb|CK076541.1|CK076541
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|58694270|gb|CK082957.1|CK082957
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|29614163|gb|CB619176.1|CB619176
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|38477834|gb|CF961967.1|CF961967
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|58593995|gb|CF992303.1|CF992303
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAEST: gi|29689279|gb|CB685554.1|CB685554
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
EST: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAG TGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
genomic: ATTAGGAAGGAAGTCGCCGAGTTCATCGAGAGGCGTGATGGTTATCCAAGgtcagaatga ... cctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCA
acatcatagctttcttgggccatattctcacacctgtatcctatacctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAAATGCTGAATACCATTATCAGAAATGAGAGAGATGGG
ttctcac putative branch site (score: 243)
atattct 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtcagaatgatcaagagtactcatgacaagtctcaactggtggtgttcttttacatcatagctttcttgggccatattctcacacctgtatcctatacctattgcagTGATCCAGAACTTATTTACCTCACAGATGGTGCCAGCAAAGGTGTGATGCAAATGCTGAATACCATTATCAGAAATGAGAGAGATGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG