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' |
gtactaaattttcatctctgtttttaaattttgttatgtaggtttggcatcgtcactgtgtgaatttaaccattttgctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCTGAATACACTAAGAAGGAATCTGAGAGGCTTCAACGCATGTTGGAGAAG
species | Oryza sativa |
transcript | LOC_Os05g06430.2 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAACAEST: gi|163925853|gb|EG714953.1|EG714953
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCC-A-Agtactaaatt ... gctaaagca
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAACAEST: gi|3768455|gb|AU032482.1|AU032482
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCC-A-Agtactaaatt ... gctaaagca
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCEST: gi|58672427|gb|CK061113.1|CK061113
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTC
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCEST: gi|33803520|gb|CF327635.1|CF327635
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTC
EST: GAAGCTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCEST: gi|58676547|gb|CK065234.1|CK065234
genomic: GAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTC
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAEST: gi|11026410|gb|AU163011.1|AU163011
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGA
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCEST: gi|86482186|gb|CI124819.1|CI124819
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTC
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCEST: gi|58690891|gb|CK079578.1|CK079578
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTC
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAEST: gi|86513133|gb|CI155766.1|CI155766
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGA
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAG GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCEST: gi|163927756|gb|EG710536.1|EG710536
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTC
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCEST: gi|87017864|gb|CI273886.1|CI273886
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTC
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCEST: gi|27577494|gb|CB000189.1|CB000189
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTC
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA CEST: gi|27577494|gb|CB000189.1|CB000189
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcag-
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA CEST: gi|27577494|gb|CB000189.1|CB000189
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcag-
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA CEST: gi|5003011|gb|AU068120.1|AU068120
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcag-
EST: AATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCEST: gi|58683615|gb|CK072302.1|CK072302
genomic: AATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTC
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCEST: gi|33803570|gb|CF327660.1|CF327660
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTC
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCEST: gi|86593482|gb|CI264361.1|CI264361
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTC
EST: CTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCEST: gi|58675064|gb|CK063751.1|CK063751
genomic: CTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTC
EST: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAA GTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGA
genomic: CTCTCCAAAATGGAAGAGGATGTTGCGAAGCTCACTGGCCCTGCTGCCAAgtactaaatt ... gctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGA
tgttatgtaggtttggcatcgtcactgtgtgaatttaaccattttgctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCTGAATACACTAAGAAGGAATCTGAGAGGCTTCAACGCATGTTGGAGAAG
tgctaaa putative branch site (score: 2)
ttttgct CT-rich tract
aatttaaccatttt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtactaaattttcatctctgtttttaaattttgttatgtaggtttggcatcgtcactgtgtgaatttaaccattttgctaaagcagGTACGGAAAGATCTATGTGAACTCTGCAAAGAAGATCATGGAGAAGGGCTCTGAATACACTAAGAAGGAATCTGAGAGGCTTCAACGCATGTTGGAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA