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gtatatacattatcgcagctcattgaaatccggccgtgtcttgtaaaaaacaaacataatttctcgcgtttcggagttcagtaacatagccggtgtgctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCGTCTGTTGACGGTGTGGCTGGCTGGCTGCCTTCCATTGAAGTTGAAGCG
species | Oryza sativa |
transcript | LOC_Os07g07560.1 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88996961|gb|CI389627.1|CI389627
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCC-GACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTC-GGCGAACCEST: gi|22304710|gb|BQ905932.1|BQ905932
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88256101|gb|CI358489.1|CI358489
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88970546|gb|CI384048.1|CI384048
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATTTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88324661|gb|CI523262.1|CI523262
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88446816|gb|CI526649.1|CI526649
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTTTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88966779|gb|CI366002.1|CI366002
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|86838402|gb|CI327763.1|CI327763
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88286387|gb|CI524886.1|CI524886
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88528073|gb|CI456279.1|CI456279
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88485181|gb|CI422452.1|CI422452
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88270702|gb|CI385960.1|CI385960
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCACTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88843625|gb|CI372525.1|CI372525
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88274910|gb|CI388368.1|CI388368
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|86832456|gb|CI344706.1|CI344706
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88319294|gb|CI515755.1|CI515755
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88835842|gb|CI370947.1|CI370947
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88282547|gb|CI403943.1|CI403943
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88456967|gb|CI529168.1|CI529168
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACEST: gi|88460748|gb|CI534620.1|CI534620
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAA-Ggtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAAC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88960004|gb|CI381882.1|CI381882
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88525923|gb|CI452964.1|CI452964
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88413204|gb|CI523765.1|CI523765
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|86825658|gb|CI361807.1|CI361807
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88533889|gb|CI462564.1|CI462564
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88276503|gb|CI397107.1|CI397107
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAATAAACTCTCC-GACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88374360|gb|CI513447.1|CI513447
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88256481|gb|CI358869.1|CI358869
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|86866762|gb|CI343562.1|CI343562
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAAATCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|86853151|gb|CI324853.1|CI324853
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|86600382|gb|CI356139.1|CI356139
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCEST: gi|88380408|gb|CI518778.1|CI518778
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
EST: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAG GATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
genomic: AGACACAAGAAACTCTCCGGACCTCTGCCTTCCCCAGTAATCATGTCAAGgtatatacat ... ctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACC
aacataatttctcgcgtttcggagttcagtaacatagccggtgtgctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCGTCTGTTGACGGTGTGGCTGGCTGGCTGCCTTCCATTGAAGTTGAAGCG
cagtaac putative branch site (score: 62)
aatttct 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtatatacattatcgcagctcattgaaatccggccgtgtcttgtaaaaaacaaacataatttctcgcgtttcggagttcagtaacatagccggtgtgctgttcgcagGATAAATGGGCGAAAAATCTGTACATAGCATCGATCTGCTTCGGGCGAACCGTCTGTTGACGGTGTGGCTGGCTGGCTGCCTTCCATTGAAGTTGAAGCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC