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' |
...attcgaatgttgtagctgttgtatttggtatgtattatatatatgttgtatatctggctgtagaattgctgattccgtttcttttcttcagctttacaagACCAGAGACGAGAAGTATCTGCTGGATATGCAGAGAGTTACGGGGCCTCAGCTCCTTTTCCTGGACTTCTGTGCAGACTTCCTTACCAAGCTGAGGGTTC
species | Oryza sativa |
transcript | LOC_Os03g17980.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|86510847|gb|CI153480.1|CI153480
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|29672696|gb|CB668971.1|CB668971
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29672696|gb|CB668971.1|CB668971
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29672696|gb|CB668971.1|CB668971
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29672696|gb|CB668971.1|CB668971
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29672696|gb|CB668971.1|CB668971
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|86427605|gb|CI072702.1|CI072702
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|86426169|gb|CI071266.1|CI071266
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|2317410|gb|C22464.1|C22464
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|2317410|gb|C22464.1|C22464
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|2317410|gb|C22464.1|C22464
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|2317410|gb|C22464.1|C22464
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|2317410|gb|C22464.1|C22464
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|218504457|gb|FG953019.1|FG953019
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|218504457|gb|FG953019.1|FG953019
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|218504457|gb|FG953019.1|FG953019
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|218504457|gb|FG953019.1|FG953019
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|218504457|gb|FG953019.1|FG953019
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|88833351|gb|CI076832.1|CI076832
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|88902528|gb|CI088066.1|CI088066
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|86491677|gb|CI134310.1|CI134310
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|86432280|gb|CI085891.1|CI085891
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|29673828|gb|CB670103.1|CB670103
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29673828|gb|CB670103.1|CB670103
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29673828|gb|CB670103.1|CB670103
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29673828|gb|CB670103.1|CB670103
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29673828|gb|CB670103.1|CB670103
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|86489325|gb|CI131958.1|CI131958
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|29663427|gb|CB659702.1|CB659702
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29663427|gb|CB659702.1|CB659702
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29663427|gb|CB659702.1|CB659702
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29663427|gb|CB659702.1|CB659702
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29663427|gb|CB659702.1|CB659702
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|86492611|gb|CI135244.1|CI135244
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|86491517|gb|CI134150.1|CI134150
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|86526185|gb|CI166391.1|CI166391
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|88967880|gb|CI098122.1|CI098122
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|89182206|gb|CI113575.1|CI113575
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|86845257|gb|CI340365.1|CI340365
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG ACCAGAGACGAGAAGTATCTGCTGGATATGCAGAGAGTTACGGGGCCTCAGEST: gi|29627234|gb|CB632245.1|CB632245
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaagACCAGAGACGAGAAGTATCTGCTGGATATGCAGAGAGTTACGGGGCCTCAG
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|29614996|gb|CB620009.1|CB620009
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29614996|gb|CB620009.1|CB620009
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29614996|gb|CB620009.1|CB620009
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29614996|gb|CB620009.1|CB620009
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29614996|gb|CB620009.1|CB620009
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|88831211|gb|CI082021.1|CI082021
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|29672731|gb|CB669006.1|CB669006
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29672731|gb|CB669006.1|CB669006
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29672731|gb|CB669006.1|CB669006
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29672731|gb|CB669006.1|CB669006
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29672731|gb|CB669006.1|CB669006
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|86490455|gb|CI133088.1|CI133088
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGCTTTACAAGEST: gi|29616520|gb|CB621532.1|CB621532
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAAT----C----C-AGgtgtgcaatt ... gc
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29616520|gb|CB621532.1|CB621532
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29616520|gb|CB621532.1|CB621532
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29616520|gb|CB621532.1|CB621532
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG CEST: gi|29616520|gb|CB621532.1|CB621532
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
EST: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAG C
genomic: ACGGTGATGTAAATGGGAGGCTACCTGCTGTGATCAAGTTTGAAATCCAGgtgtgcaatt ... gctttacaag-
ttgtatatctggctgtagaattgctgattccgtttcttttcttcagctttacaagACCAGAGACGAGAAGTATCTGCTGGATATGCAGAGAGTTACGGGGCCTCAGCTCCTTTTCCTGGACTTCTGTGCAGACTTCCTTACCAAGCTGAGGGTTC
tgctgat putative branch site (score: 7)
ttccgtttcttttctt CT-rich tract
tttctttt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| attcgaatgttgtagctgttgtatttggtatgtattatatatatgttgtatatctggctgtagaattgctgattccgtttcttttcttcagctttacaagACCAGAGACGAGAAGTATCTGCTGGATATGCAGAGAGTTACGGGGCCTCAGCTCCTTTTCCTGGACTTCTGTGCAGACTTCCTTACCAAGCTGAGGGTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - atgttgt
- - - - - - - gctgttg
- - - - - - - - - - - - - - tatgtat
- - - - - - - - - - - - - - - - - - - - - - - - - - -ctggctg