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' |
...ggatatggattttctttccttgcaatcaaacaaggatgttttccaccctattttttatattagtattttgagtccataaagctaacgttgtgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCACATCAGATGCTGTTGTGGTGGACATCAAGGAGCCTGAGAAAGCAGCTG
species | Oryza sativa |
transcript | LOC_Os02g01280.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
EST: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAG GTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCEST: gi|6934866|gb|AU082403.1|AU082403
genomic: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: ATCCCACCAAG GT-GTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCEST: gi|88264131|gb|CI367905.1|CI367905
genomic: ATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAG GTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCEST: gi|88906229|gb|CI375301.1|CI375301
genomic: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAG GTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGCTGGCGAAAACATTCATCEST: gi|29631899|gb|CB636908.1|CB636908
genomic: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAG GTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCEST: gi|88978439|gb|CI384821.1|CI384821
genomic: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: GATTTGATGGCTGCTGGTATTATTGATCCCACCAAG GTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCEST: gi|88270788|gb|CI386046.1|CI386046
genomic: GATTTGATGGCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAA- GTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCEST: gi|88263369|gb|CI367143.1|CI367143
genomic: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAG GTGTTGAGATGTTGCTTGGAGCATTCTGCGTCGGTGGCGAAAACATTCATCEST: gi|88266148|gb|CI377050.1|CI377050
genomic: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: AGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAG GTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCEST: gi|88834725|gb|CI370028.1|CI370028
genomic: AGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: GCTGCT-GTATTATTGATCCCACCAAG GT-GTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCEST: gi|88275358|gb|CI395209.1|CI395209
genomic: GCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAG GTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCEST: gi|89185536|gb|CI052062.1|CI052062
genomic: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAG GTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCEST: gi|86826727|gb|CI364251.1|CI364251
genomic: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAG GTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCEST: gi|86884887|gb|CI314463.1|CI314463
genomic: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: CACGAAAATATGAGGATTTGATGGCTGCTGTTATTATTGATCCCACCAAG GTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCEST: gi|86869378|gb|CI339102.1|CI339102
genomic: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAG GTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCEST: gi|88977896|gb|CI384378.1|CI384378
genomic: CAGGAAAATATGAGGATTTGATGGCTGCTGGTATTATTGATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
EST: ATCCCACCAAG GTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
genomic: ATCCCACCAAGgtaattttct ... tgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATC
ccctattttttatattagtattttgagtccataaagctaacgttgtgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCACATCAGATGCTGTTGTGGTGGACATCAAGGAGCCTGAGAAAGCAGCTG
agctaac putative branch site (score: 40)
ttttttatattagtat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| ggatatggattttctttccttgcaatcaaacaaggatgttttccaccctattttttatattagtattttgagtccataaagctaacgttgtgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCACATCAGATGCTGTTGTGGTGGACATCAAGGAGCCTGAGAAAGCAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - -ccttgca
- - - - - - - - - - - - -tcaaaca