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...ccttgttatgttgttttcgtttttcttgtggagtttactatgtagtaagttaattgcaagatatcattcatcatcatataacatccaagtagaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGGAGGCACAGAAGTCCAAAATGCGTGCATTGGAAGGCAAGTTCAAGGAGC
species | Oryza sativa |
transcript | LOC_Os10g41590.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
EST: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGEST: gi|88424216|gb|CI581771.1|CI581771
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GGCCGGGTGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGEST: gi|88728249|gb|CI751759.1|CI751759
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGEST: gi|88296461|gb|CI669237.1|CI669237
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGEST: gi|88454307|gb|CI569879.1|CI569879
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGEST: gi|88317188|gb|CI626831.1|CI626831
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGEST: gi|88309663|gb|CI656404.1|CI656404
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGEST: gi|88407459|gb|CI586300.1|CI586300
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGEST: gi|88403667|gb|CI575551.1|CI575551
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GGCCGGGCGGCGATCTCCATCCGTCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGEST: gi|88400700|gb|CI596121.1|CI596121
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGAAATTEST: gi|88316061|gb|CI618937.1|CI618937
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAG-CTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATT
EST: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGAAATTGEST: gi|88431474|gb|CI579591.1|CI579591
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGGAGGGGAGGGGATCCTG ATGGATGCCGAAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATGGEST: gi|88729990|gb|CI753605.1|CI753605
genomic: GCCGGGCGGCGATCTCCATCCGGCGAGCAGC-GGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCACTATGAGAACCAGAAGCTGGTGCAGCAATTGEST: gi|58669159|gb|CK057845.1|CK057845
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGEST: gi|88394940|gb|CI607667.1|CI607667
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGEST: gi|88336123|gb|CI647317.1|CI647317
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
EST: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTG ATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
genomic: GGCCGGGCGGCGATCTCCATCCGGCGAGCAGCGGAGGGGAGGGGATCCTGgtgcgtcctc ... agaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTG
taagttaattgcaagatatcattcatcatcatataacatccaagtagaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGGAGGCACAGAAGTCCAAAATGCGTGCATTGGAAGGCAAGTTCAAGGAGC
atataac putative branch site (score: 6)
atcatataa 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| ccttgttatgttgttttcgtttttcttgtggagtttactatgtagtaagttaattgcaagatatcattcatcatcatataacatccaagtagaataacagATGGATGCCGCAGCTCTTCAGTATGAGAACCAGAAGCTGGTGCAGCAATTGGAGGCACAGAAGTCCAAAATGCGTGCATTGGAAGGCAAGTTCAAGGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - -atgttgt
- - - - - - - - - - -tttcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - -ttgcaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cattcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catccaa