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' |
gtaagttaaaaggtttattcagtatatagcacatgctacaaattccattatgccttaactctgcatttagGATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCATATGGTACCGTTGCTGTTGGAACTGGCACTTCCCGTATGCATTATGAGA
species | Oryza sativa |
transcript | LOC_Os02g20410.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
EST: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAA G--G----A-----TGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCAEST: gi|33678022|gb|CF306261.1|CF306261
genomic: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAAgtaagttaaa ... ctgcatttagGATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCA
EST: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAA GATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCAEST: gi|29635159|gb|CB640168.1|CB640168
genomic: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAAgtaagttaaa ... ctgcatttagGATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCA
EST: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAA GATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCAEST: gi|29633282|gb|CB638291.1|CB638291
genomic: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAAgtaagttaaa ... ctgcatttagGATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCA
EST: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAA GATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCAEST: gi|66923900|gb|CX110748.1|CX110748
genomic: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAAgtaagttaaa ... ctgcatttagGATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCA
EST: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAA GATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCAEST: gi|58663049|gb|CK051735.1|CK051735
genomic: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAAgtaagttaaa ... ctgcatttagGATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCA
EST: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAA GATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCAEST: gi|29635134|gb|CB640143.1|CB640143
genomic: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAAgtaagttaaa ... ctgcatttagGATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCA
EST: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAA GATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCA
genomic: CTGCAGAGGTCTATCTTTCAGCTTTTGATCGCACTAAACAAGCTGAAGAAgtaagttaaa ... ctgcatttagGATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCA
tattcagtatatagcacatgctacaaattccattatgccttaactctgcatttagGATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCATATGGTACCGTTGCTGTTGGAACTGGCACTTCCCGTATGCATTATGAGA
ccttaac putative branch site (score: 42)
agtatata 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaagttaaaaggtttattcagtatatagcacatgctacaaattccattatgccttaactctgcatttagGATGCTTTAAGGGATGCACATGAAGCTGCTTTAAGGAAGGCACTTGAAGCATATGGTACCGTTGCTGTTGGAACTGGCACTTCCCGTATGCATTATGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT