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' |
gtactgttactttgctgcctgaaatttgtctatgattcttataagtcggcaaagttgcatagctatgcacgatcgaacaaaagtataagaaatgatgcgtgaaaagaaaaggaattgactggtttgttgcataggtagtaactccatttccctttgcatttcccttttgtttttgctatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAACAAGTCTCCAGGATGCACTCCTAGTGCACAACGATGACGATGATCAGTG
species | Oryza sativa |
transcript | LOC_Os06g49430.2 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|88245478|gb|CI245327.1|CI245327
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|86859816|gb|CI345452.1|CI345452
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: TAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|88217018|gb|CI216722.1|CI216722
genomic: TAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: CAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|38470682|gb|CF954813.1|CF954813
genomic: CAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGTGGTCGTGTCGATGGATTGTCTGEST: gi|86528043|gb|CI168249.1|CI168249
genomic: GGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAG-GGTCG-GTCGATGGATTGTCTG
EST: TTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|27577996|gb|CB000691.1|CB000691
genomic: TTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|86429445|gb|CI076126.1|CI076126
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: TAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|29681151|gb|CB677426.1|CB677426
genomic: TAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|29672762|gb|CB669037.1|CB669037
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|86481501|gb|CI124134.1|CI124134
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|117380082|gb|BI892449.2|BI892449
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|88247067|gb|CI246916.1|CI246916
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: CAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|88247130|gb|CI246979.1|CI246979
genomic: CAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|25803435|gb|CA759404.1|CA759404
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|29632341|gb|CB637350.1|CB637350
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|86500328|gb|CI142961.1|CI142961
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|89195898|gb|CI007317.1|CI007317
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|58694508|gb|CK083195.1|CK083195
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|29645355|gb|CB650362.1|CB650362
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|58682915|gb|CK071602.1|CK071602
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|88201577|gb|CI201932.1|CI201932
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: AAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|58603200|gb|CK013728.1|CK013728
genomic: AAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|86829561|gb|CI286751.1|CI286751
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|29646573|gb|CB651580.1|CB651580
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTTTGAAGAAATGGAAGGGTCGGTCGATGGATTGTTTGAAEST: gi|86851880|gb|CI316449.1|CI316449
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|29646572|gb|CB651579.1|CB651579
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAAEST: gi|29633814|gb|CB638823.1|CB638823
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
EST: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAG GATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
genomic: GCATTAGTGCTTCCAAGTGTGTCGCTGTCAAGGACAATAAAGAACCAGAGgtactgttac ... tatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAA
taggtagtaactccatttccctttgcatttcccttttgtttttgctatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAACAAGTCTCCAGGATGCACTCCTAGTGCACAACGATGACGATGATCAGTG
tagtaac putative branch site (score: 34)
tttccctttgcatttc putative PPT
ttttgttttt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtactgttactttgctgcctgaaatttgtctatgattcttataagtcggcaaagttgcatagctatgcacgatcgaacaaaagtataagaaatgatgcgtgaaaagaaaaggaattgactggtttgttgcataggtagtaactccatttccctttgcatttcccttttgtttttgctatcctttagGATGATTACATCTCTGAAGAAATGGAAGGGTCGGTCGATGGATTGTCTGAACAAGTCTCCAGGATGCACTCCTAGTGCACAACGATGACGATGATCAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG