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' |
...tcaatgccaatgaattttaatacacgttttcagaaaacttcagtaagtagttattgatttccagaagcctttatttcgatgctggtgtgtcaatgtacagGTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTATGCTTACGGCTGCAATTTGCGGGGATGTGTTTGCTGCTCCGTCGGTTAA
species | Physcomitrella patens |
transcript | PP1S55_31V6.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
EST: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAG GTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTAEST: gi|162159727|gb|FC336113.1|FC336113
genomic: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAGgtataatctt ... caatgtacagGTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTA
EST: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAG GTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTAEST: gi|208364697|gb|DC943599.1|DC943599
genomic: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAGgtataatctt ... caatgtacagGTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTA
EST: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAG GTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTAEST: gi|162258293|gb|FC434692.1|FC434692
genomic: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAGgtataatctt ... caatgtacagGTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTA
EST: AAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAG GTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTAEST: gi|162160936|gb|FC337480.1|FC337480
genomic: AAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAGgtataatctt ... caatgtacagGTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTA
EST: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAG GTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTAEST: gi|100389368|gb|BY971118.1|BY971118
genomic: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAGgtataatctt ... caatgtacagGTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTA
EST: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAG GTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTAEST: gi|162191126|gb|FC367388.1|FC367388
genomic: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAGgtataatctt ... caatgtacagGTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTA
EST: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAG GTGGTGGCAGTGGTCATGACCCTGCTCATGTAEST: gi|100414433|gb|BY992772.1|BY992772
genomic: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAGgtataatctt ... caatgtacagGTGGTGGCAGTGGTCATGAGCCTGCTCATGTA
EST: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAG GTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTA
genomic: GCGGGCAGATATTAAACGAGGTAGCTATAATAAAGTTGCAATTTTATCAGgtataatctt ... caatgtacagGTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTA
agtagttattgatttccagaagcctttatttcgatgctggtgtgtcaatgtacagGTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTATGCTTACGGCTGCAATTTGCGGGGATGTGTTTGCTGCTCCGTCGGTTAA
tattgat putative branch site (score: 42)
ttattgattt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| tcaatgccaatgaattttaatacacgttttcagaaaacttcagtaagtagttattgatttccagaagcctttatttcgatgctggtgtgtcaatgtacagGTGGTGGCAGTGGTCATGAGCCTGCTCATGTAGGATATGTAGGTGAGGGTATGCTTACGGCTGCAATTTGCGGGGATGTGTTTGCTGCTCCGTCGGTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT