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gtaggaaaaaaaatgcagtatttggttactacttggatatgatgatagagttctgaactgtaacgtgcaaaacaacgctaactttgtatgatctgtcatcaacctttttttttcagAGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATTGGACTCGCCCTAAAGACCATCATTATGACTGGAGAGGAGTGGCACCTCG
species | Oryza sativa |
transcript | LOC_Os03g13540.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
EST: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAG AGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATTEST: gi|58656595|gb|CK045275.1|CK045275
genomic: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAGgtaggaaaaa ... tttttttcagAGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATT
EST: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAG AGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATTEST: gi|58593522|gb|CF991830.1|CF991830
genomic: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAGgtaggaaaaa ... tttttttcagAGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATT
EST: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAG AGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATAEST: gi|58587652|gb|CF985960.1|CF985960
genomic: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAGgtaggaaaaa ... tttttttcagAGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATA
EST: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAG AGATTGTGGATTTCTTCTTTATCGACAEST: gi|27576775|gb|CA999469.1|CA999469
genomic: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAGgtaggaaaaa ... tttttttcagAGATTGTGGATTTCTTCTTTATCGACA
EST: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAG AGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATTEST: gi|58685580|gb|CK074267.1|CK074267
genomic: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAGgtaggaaaaa ... tttttttcagAGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATT
EST: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAG AGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATTEST: gi|8527438|gb|AU092253.1|AU092253
genomic: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAGgtaggaaaaa ... tttttttcagAGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATT
EST: TCGTTCATTGTTAATCCAG AGATTGTGNATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATTEST: gi|117234872|gb|CT847928.1|CT847928
genomic: TCGTTCATTGTTAATGCAGgtaggaaaaa ... tttttttcagAGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATT
EST: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAG AGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATTEST: gi|58659633|gb|CK048313.1|CK048313
genomic: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAGgtaggaaaaa ... tttttttcagAGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATT
EST: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAG AGATTGTGGATTTCTTCTTTATCGEST: gi|27577370|gb|CB000065.1|CB000065
genomic: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAGgtaggaaaaa ... tttttttcagAGATTGTGGATTTCTTCTTTATCG
EST: AAAGATCGACCAGCGATTCATTCGTATGAGGTCGTTCATTGTTAATGCAG AGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATTEST: gi|58608007|gb|CK036040.1|CK036040
genomic: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAGgtaggaaaaa ... tttttttcagAGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATT
EST: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAG AGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATT
genomic: AAAGATCGACCAGCGATTCATTTGCATGAGGTCGTTCATTGTTAATGCAGgtaggaaaaa ... tttttttcagAGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATT
aacgtgcaaaacaacgctaactttgtatgatctgtcatcaacctttttttttcagAGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATTGGACTCGCCCTAAAGACCATCATTATGACTGGAGAGGAGTGGCACCTCG
cgctaac putative branch site (score: 104)
tcaacctttttttttc putative PPT
tttttttttca 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaggaaaaaaaatgcagtatttggttactacttggatatgatgatagagttctgaactgtaacgtgcaaaacaacgctaactttgtatgatctgtcatcaacctttttttttcagAGATTGTGGATTTCTTCTTTATCGACACAACTCCATTTCAGCTGAAATATTGGACTCGCCCTAAAGACCATCATTATGACTGGAGAGGAGTGGCACCTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG