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gtaacatcttcagcttatgttagtcttttaatagcatcatatttccgatagtgttttctctaagtggttgttagatctatattctggtgatctgttcttattcctattaacatacccttttctattttcattgtcaatcagATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATGGGCCTTTTTGAGAAACGCAGAGCAAGAAACTTCTTCATTTACGTCCAAG
species | Oryza sativa |
transcript | LOC_Os05g34540.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
EST: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAG ATTCACAAGGTACCTGCTACTGACATGGAGGCTCTGAAGTCCCCTTTGATGEST: gi|29667293|gb|CB663568.1|CB663568
genomic: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAGgtaacatctt ... tgtcaatcagATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATG
EST: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAG ATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATGEST: gi|58685922|gb|CK074609.1|CK074609
genomic: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAGgtaacatctt ... tgtcaatcagATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATG
EST: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAG ATTCACAAGGTACCTGCTACTGACATGGAGGCTCTGAAGTCCCCTTTGATGEST: gi|58695181|gb|CK083868.1|CK083868
genomic: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAGgtaacatctt ... tgtcaatcagATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATG
EST: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAG ATTCACAAGGTACCTGCTACTGACATGGAGGCTCTGAAGTCCCCTTTGATGEST: gi|58665153|gb|CK053839.1|CK053839
genomic: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAGgtaacatctt ... tgtcaatcagATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATG
EST: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAG ATTCACAAGGTACCTGCTACTGACATGGAGGCTCTGAAGTCCCCTTTGATGEST: gi|29674549|gb|CB670824.1|CB670824
genomic: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAGgtaacatctt ... tgtcaatcagATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATG
EST: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAG ATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATGEST: gi|572353|gb|D41864.1|D41864
genomic: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAGgtaacatctt ... tgtcaatcagATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATG
EST: AGCTACGTCTTCAGCAAAGGGAAG ATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATGEST: gi|29644094|gb|CB649101.1|CB649101
genomic: AGCTACGTCTTCAGCAAAGGGAAGgtaacatctt ... tgtcaatcagATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATG
EST: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAG ATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATG
genomic: ATTTGTCATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAGgtaacatctt ... tgtcaatcagATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATG
gtgatctgttcttattcctattaacatacccttttctattttcattgtcaatcagATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATGGGCCTTTTTGAGAAACGCAGAGCAAGAAACTTCTTCATTTACGTCCAAG
tattaac putative branch site (score: 44)
cccttttctattttca putative PPT
ttttctattttcatt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaacatcttcagcttatgttagtcttttaatagcatcatatttccgatagtgttttctctaagtggttgttagatctatattctggtgatctgttcttattcctattaacatacccttttctattttcattgtcaatcagATTCACAAGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATGGGCCTTTTTGAGAAACGCAGAGCAAGAAACTTCTTCATTTACGTCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA