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' | 17 5' 3' | 18 5' 3' | 19 5' 3' | 20 5' 3' |
21 5' 3' |
gtgccaaaatggtcctatagattattcgccttagatgttattgatttatcgcccctaattttgtcctcacattcttctcatgcagGATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCTGACAATGTAAAACCAGTGAAAAAGAAAAAGGAAAAAGCAGCAAAAGTTG
species | Oryza sativa |
transcript | LOC_Os01g09000.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
EST: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAG GATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCTEST: gi|89161518|gb|CI099490.1|CI099490
genomic: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAGgtgccaaaat ... tctcatgcagGATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCT
EST: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAG GATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCTEST: gi|58658548|gb|CK047228.1|CK047228
genomic: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAGgtgccaaaat ... tctcatgcagGATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCT
EST: GCGGACAGGTTAGGAAGATGCACCCCTGGGGTGATGCTAAGGCGAGCAAG GATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCTEST: gi|88994745|gb|CI036326.1|CI036326
genomic: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAGgtgccaaaat ... tctcatgcagGATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCT
EST: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAG GATGAAATTGACA-GAAGCTTGCAGAGATATTAGGTCCAA-GACAGATGCTEST: gi|15846919|gb|BI795195.1|BI795195
genomic: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAGgtgccaaaat ... tctcatgcagGATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCT
EST: GCGGACAGGTTAGGAAGATGCACCCCTGGGGTGATGCTAAGGCGACCAAG GATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAA-GACAGATGCTEST: gi|86826937|gb|CI268818.1|CI268818
genomic: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAGgtgccaaaat ... tctcatgcagGATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCT
EST: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAG GATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCTEST: gi|58691015|gb|CK079702.1|CK079702
genomic: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAGgtgccaaaat ... tctcatgcagGATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCT
EST: GCGGACAGGTTAGGAAGATGCACCCCTGGGGTGATGCTAAGGCGACCAAG GATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCTEST: gi|88903715|gb|CI089253.1|CI089253
genomic: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAGgtgccaaaat ... tctcatgcagGATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCT
EST: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAG GATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCTEST: gi|66928206|gb|CX115054.1|CX115054
genomic: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAGgtgccaaaat ... tctcatgcagGATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCT
EST: GCGGACAGGTTAGGAAGATGCA-CCCTGGGGTGATGCTAAGGCGACCAAG GATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCT
genomic: GCGGACAGGTTAGGAAGAGGCACCCCTGGGGTGATGCTAAGGCGACCAAGgtgccaaaat ... tctcatgcagGATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCT
ttagatgttattgatttatcgcccctaattttgtcctcacattcttctcatgcagGATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCTGACAATGTAAAACCAGTGAAAAAGAAAAAGGAAAAAGCAGCAAAAGTTG
tcctcac putative branch site (score: 35)
ttttgtcctcacattc CT-rich tract
tgttattgatttat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtgccaaaatggtcctatagattattcgccttagatgttattgatttatcgcccctaattttgtcctcacattcttctcatgcagGATGAAATTGACAAGAAGCTTGCAGAGATATTAGGTCCAAAGACAGATGCTGACAATGTAAAACCAGTGAAAAAGAAAAAGGAAAAAGCAGCAAAAGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA