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' | 15 5' 3' | 16 5' 3' |
gtttgacttttctcctctcccccgctccccatttttgcgaggaaacgtgttggatttttattttttttcgtgtgatttgattcggtgtgtggcgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAGGGCATGGTGGGAC
species | Oryza sativa |
transcript | LOC_Os02g56850.3 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
EST: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAG GTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAEST: gi|88726529|gb|CI750184.1|CI750184
genomic: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAGgtttgacttt ... cgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGA
EST: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAG GTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAEST: gi|88722054|gb|CI745381.1|CI745381
genomic: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAGgtttgacttt ... cgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGA
EST: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAG GTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAEST: gi|88395150|gb|CI609466.1|CI609466
genomic: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAGgtttgacttt ... cgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGA
EST: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAG GTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAEST: gi|58686599|gb|CK075286.1|CK075286
genomic: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAGgtttgacttt ... cgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGA
EST: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAG GTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAEST: gi|88416046|gb|CI594158.1|CI594158
genomic: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAGgtttgacttt ... cgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGA
EST: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAG GTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAEST: gi|29675048|gb|CB671323.1|CB671323
genomic: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAGgtttgacttt ... cgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGA
EST: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAG GTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAEST: gi|2443112|gb|C74883.1|C74883
genomic: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAGgtttgacttt ... cgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGA
EST: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAG GTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAEST: gi|88694888|gb|CI738926.1|CI738926
genomic: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAGgtttgacttt ... cgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGA
EST: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAG GTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAEST: gi|88723894|gb|CI745591.1|CI745591
genomic: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAGgtttgacttt ... cgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGA
EST: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAG GTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAEST: gi|426418|gb|D22281.1|D22281
genomic: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAGgtttgacttt ... cgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGA
EST: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAG GTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAEST: gi|88718629|gb|CI742139.1|CI742139
genomic: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAGgtttgacttt ... cgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGA
EST: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAG GTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGA
genomic: GGAGCGGCGGCGTCCGGGGCTCTCGCACCTCCGCGTCCTTCGGGGCTAAGgtttgacttt ... cgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGA
tgttggatttttattttttttcgtgtgatttgattcggtgtgtggcgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAGGGCATGGTGGGAC
atttgat putative branch site (score: 5)
atttttattttttttc 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtttgacttttctcctctcccccgctccccatttttgcgaggaaacgtgttggatttttattttttttcgtgtgatttgattcggtgtgtggcgcggttcagGTTGCGATTTGCGAGCTCCCGTTCCATCCCATCAGCTCGGATTGGCAAGGAGGGCATGGTGGGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG