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' |
gtctgtagcacttctgatccctgatgttttatattttatagatcacattgtttgcctttgtcttggactctaaaaggactttctaacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTGCAAAATTTGCACAG
species | Oryza sativa |
transcript | LOC_Os03g52840.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|58691302|gb|CK079989.1|CK079989
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|38474524|gb|CF958657.1|CF958657
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|38479794|gb|CF963883.1|CF963883
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|29672938|gb|CB669213.1|CB669213
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAAGT-ATGAGTAACTGEST: gi|29687054|gb|CB683329.1|CB683329
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAA-GTTATGAGTAACTG
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|4716856|gb|AU057972.1|AU057972
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|38474897|gb|CF959030.1|CF959030
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|13420583|gb|AU174673.1|AU174673
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|11442748|gb|BF430651.1|BF430651
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|29675548|gb|CB671823.1|CB671823
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: TCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|38476360|gb|CF960493.1|CF960493
genomic: TCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTGGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|29629705|gb|CB634714.1|CB634714
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|29621679|gb|CB626690.1|CB626690
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: TAGCTG-TGCGCTTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGEST: gi|33663440|gb|CF294407.1|CF294407
genomic: TAGCTGTTGCGC-TTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTG
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|38482519|gb|CF966548.1|CF966548
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GCGCTT-AGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|58692040|gb|CK080727.1|CK080727
genomic: GCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|29681405|gb|CB677680.1|CB677680
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTATCTGTEST: gi|55410185|gb|CV722561.1|CV722561
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|29681406|gb|CB677681.1|CB677681
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|38472677|gb|CF956809.1|CF956809
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|14571290|gb|BI118658.1|BI118658
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTEST: gi|55411163|gb|CV723539.1|CV723539
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|38478032|gb|CF962165.1|CF962165
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|428581|gb|D24733.1|D24733
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|29674038|gb|CB670313.1|CB670313
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTEST: gi|218505280|gb|FG952910.1|FG952910
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGT
EST: GTGGACCACATAATCATACCATTACTGGCTTACCTGTTGCGCTTAAGCAG GCAACTACTCCGGAGTACAGAGCTTAT
genomic: GTGGACCACATAATCATACCATTACTGGCTTAGCTGTTGCGCTTAAGCAGgtctgtagca ... taacttccagGCAACTACTCCGGAGTACAGAGCTTAT
tagatcacattgtttgcctttgtcttggactctaaaaggactttctaacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTGCAAAATTTGCACAG
ttctaac putative branch site (score: 1)
ctttct CT-rich tract
attgttt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtctgtagcacttctgatccctgatgttttatattttatagatcacattgtttgcctttgtcttggactctaaaaggactttctaacttccagGCAACTACTCCGGAGTACAGAGCTTATCAAGAGCAAGTTATGAGTAACTGTGCAAAATTTGCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG