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gttagttcgatacacgctccacatttctaccgcactatgctgcttttcttgaacttctatacagaatttccccacacatggctatactcaatgaggttttctgctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGCGGTGATGCCAAGGGTATGGCAAGAGACGTACACAGAGCTCTTCATACAA
species | Oryza sativa |
transcript | LOC_Os04g55960.1 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
EST: AGAATACGTGCAGCATAAGATGACAGAGAA- GCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGCEST: gi|27577335|gb|CB000030.1|CB000030
genomic: AGAATACGTGCAGCATAAGATGACAGAGAAGgttagttcga ... ctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGC
EST: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAG GCCACAGAAATTTGGAACATCATCTCACAAGGTGGTTACATAEST: gi|58666486|gb|CK055172.1|CK055172
genomic: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAGgttagttcga ... ctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATA
EST: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAG GCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGCEST: gi|88272817|gb|CI386077.1|CI386077
genomic: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAGgttagttcga ... ctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGC
EST: AGAATACG-GCCAGCATAAGATGACAGAGAAG GCCACAGAAATTTTGAACATCGTCTCACAAGGTGGTTACATATATGTGTGCEST: gi|29674228|gb|CB670503.1|CB670503
genomic: AGAATACGTG-CAGCATAAGATGACAGAGAAGgttagttcga ... ctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGC
EST: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAG GCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGCEST: gi|163929241|gb|EG712694.1|EG712694
genomic: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAGgttagttcga ... ctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGC
EST: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAG GCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGCEST: gi|25800626|gb|CA756587.1|CA756587
genomic: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAGgttagttcga ... ctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGC
EST: CAAAGAATACGTGCAGCATAAGATGACAGAGAAG GCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGCEST: gi|66917610|gb|CX104458.1|CX104458
genomic: CAAAGAATACGTGCAGCATAAGATGACAGAGAAGgttagttcga ... ctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGC
EST: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAG GCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGCEST: gi|33793723|gb|CF322744.1|CF322744
genomic: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAGgttagttcga ... ctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGC
EST: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAG GCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGCEST: gi|38480582|gb|CF964671.1|CF964671
genomic: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAGgttagttcga ... ctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGC
EST: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAT GCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGCEST: gi|58673422|gb|CK062108.1|CK062108
genomic: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAGgttagttcga ... ctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGC
EST: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAG GCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGCEST: gi|22307634|gb|BQ908856.1|BQ908856
genomic: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAGgttagttcga ... ctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGC
EST: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAG GCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGC
genomic: CTCGTGAAGGACCAGCCAAAGAATACGTGCAGCATAAGATGACAGAGAAGgttagttcga ... ctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGC
atacagaatttccccacacatggctatactcaatgaggttttctgctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGCGGTGATGCCAAGGGTATGGCAAGAGACGTACACAGAGCTCTTCATACAA
tgctgat putative branch site (score: 78)
ttttctgct CT-rich tract
aattt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gttagttcgatacacgctccacatttctaccgcactatgctgcttttcttgaacttctatacagaatttccccacacatggctatactcaatgaggttttctgctgatatcagGCCACAGAAATTTGGAACATCGTCTCACAAGGTGGTTACATATATGTGTGCGGTGATGCCAAGGGTATGGCAAGAGACGTACACAGAGCTCTTCATACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT