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' | 12 5' 3' | 13 5' 3' | 14 5' 3' | 15 5' 3' | 16 5' 3' | 17 5' 3' | 18 5' 3' | 19 5' 3' | 20 5' 3' |
gtaggtagtgttcttttattttgaaagatggcatactactgattactaaccttcaacatctctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCACCGTGCTCCTCCTTGAGAGCTGCTTCTCTTCATGACATGCAATGGGAG
species | Oryza sativa |
transcript | LOC_Os01g62900.1 |
intron # | 20 |
splice site | 3' |
intron type | U2 |
EST: AGGGATTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAG GTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCEST: gi|88254967|gb|CI353791.1|CI353791
genomic: AGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
EST: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAG GTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCEST: gi|428854|gb|D25010.1|D25010
genomic: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
EST: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTNAG GTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCEST: gi|87028718|gb|CI349437.1|CI349437
genomic: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
EST: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAG GTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCEST: gi|88436007|gb|CI516543.1|CI516543
genomic: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
EST: CTCCCTTTGCAGTGAG GTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCEST: gi|88690367|gb|CI734446.1|CI734446
genomic: CTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
EST: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAG GTGAAGTGGCTTGTGAAGGAGCTGTTGTACAGCAATTTTTTGCAGACGCCCEST: gi|44670561|gb|CR283995.1|CR283995
genomic: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
EST: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAG GTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCEST: gi|38471160|gb|CF955291.1|CF955291
genomic: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
EST: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAG GTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCEST: gi|88691820|gb|CI733397.1|CI733397
genomic: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
EST: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAG GTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCEST: gi|88265249|gb|CI369023.1|CI369023
genomic: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
EST: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAG GTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCEST: gi|88690168|gb|CI734247.1|CI734247
genomic: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
EST: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAG GTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCEST: gi|88273346|gb|CI388802.1|CI388802
genomic: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
EST: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAG GTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCEST: gi|33683777|gb|CF312016.1|CF312016
genomic: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
EST: GGCGACAAGGGAGTTGTTTACACCCCACAGGGAGCTCCCTTTGCAGTGAG GTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCEST: gi|88261597|gb|CI365173.1|CI365173
genomic: GGCGACAAGGGAGTTGTTTACA-CCCACAGGGAGCTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
EST: CGCCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAG -TGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
genomic: CGGCGACAAGGGAGTTGTTTACACCCACAGGGAGCTCCCTTTGCAGTGAGgtaggtagtg ... ctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTC
tattttgaaagatggcatactactgattactaaccttcaacatctctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCACCGTGCTCCTCCTTGAGAGCTGCTTCTCTTCATGACATGCAATGGGAG
tactaac putative branch site (score: 6)
catctct putative PPT
attactaa 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaggtagtgttcttttattttgaaagatggcatactactgattactaaccttcaacatctctggtttcagGTGAAGTGGCTTGTGAAGGAGCTGTTGTAGAGCAATTTTTTGCAGACGCTCACCGTGCTCCTCCTTGAGAGCTGCTTCTCTTCATGACATGCAATGGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT