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' |
gtagttcatgattcatgaatcctgttgtccatcctttttttccttttcccctgaacatgctcttttactggtaacatggtactgtttccatcttacacctagctttgtgtcaatggcattagtgtttattattttaaccatagttttcttttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCGTGAAACTGCTTGATATTGTTAGAGATCAGCACTCAAAAACACCAAGCT
species | Oryza sativa |
transcript | LOC_Os07g02350.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|58591038|gb|CF989346.1|CF989346
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAACATGCGTTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCACAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|117220732|gb|CT845509.1|CT845509
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|58691077|gb|CK079764.1|CK079764
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: AGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|58658866|gb|CK047546.1|CK047546
genomic: AGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|88362961|gb|CI614317.1|CI614317
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAACAATAEST: gi|58659986|gb|CK048666.1|CK048666
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATA
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|2317607|gb|C22661.1|C22661
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|58593999|gb|CF992307.1|CF992307
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCCAAAGAGAGATTAAAATACTTCAGAATCTTTGTGGAGGTCCCAATATCEST: gi|29663346|gb|CB659621.1|CB659621
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|2317323|gb|C22377.1|C22377
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGNAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|29657465|gb|CB653740.1|CB653740
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCCAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|428809|gb|D24965.1|D24965
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|58600654|gb|CK011182.1|CK011182
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATCACAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|29662230|gb|CB658505.1|CB658505
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|58653242|gb|CK041922.1|CK041922
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|11442779|gb|BF430681.1|BF430681
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|27577759|gb|CB000454.1|CB000454
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: AATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGACGTAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|58681564|gb|CK070251.1|CK070251
genomic: AATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|5607464|gb|AU076249.1|AU076249
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCEST: gi|218485894|gb|FG960234.1|FG960234
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
EST: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAG ATCAAAAGAGAGATATAAATACTTCAGAATCTTGGTGGAGGTCCAAATATC
genomic: ACAATGAAAAATGCATTATCAAAATTCTCAAGCCTGTGAAGAAAAAGAAGgtagttcatg ... ttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATC
tgtgtcaatggcattagtgtttattattttaaccatagttttcttttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCGTGAAACTGCTTGATATTGTTAGAGATCAGCACTCAAAAACACCAAGCT
ttttaac putative branch site (score: 62)
ttttcttttgt putative PPT
tttattattttaacca 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtagttcatgattcatgaatcctgttgtccatcctttttttccttttcccctgaacatgctcttttactggtaacatggtactgtttccatcttacacctagctttgtgtcaatggcattagtgtttattattttaaccatagttttcttttgtatgcagATCAAAAGAGAGATAAAAATACTTCAGAATCTTTGTGGAGGTCCAAATATCGTGAAACTGCTTGATATTGTTAGAGATCAGCACTCAAAAACACCAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT