1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' |
...tccaatggaagctggaaaatatcatatcttcttttaaaagttttcaagggtagtgctattttttagtaatttcggtatgtgcctgatttttctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAATTTTCAGCTTCAAAAGAGAAACTGAAAGTTGTTGACTTGATTGGCCGCT
species | Oryza sativa |
transcript | LOC_Os04g48410.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
EST: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|86416602|gb|CI030613.1|CI030613
genomic: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|88443140|gb|CI546712.1|CI546712
genomic: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: TTATAGATCCAATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|88205774|gb|CI205623.1|CI205623
genomic: TTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|86860179|gb|CI322047.1|CI322047
genomic: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|38482288|gb|CF966333.1|CF966333
genomic: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|88452282|gb|CI555359.1|CI555359
genomic: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: CAAAGTCTATAACCCATCGGATTATAGATCCAATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|89166005|gb|CI103095.1|CI103095
genomic: CAAAGTCTATAACCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|88506338|gb|CI433844.1|CI433844
genomic: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|86860224|gb|CI322078.1|CI322078
genomic: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAG CCTCTTGGTGACCTGTGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|218484802|gb|FG943717.1|FG943717
genomic: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|29685204|gb|CB681479.1|CB681479
genomic: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|89163844|gb|CI100734.1|CI100734
genomic: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|88514871|gb|CI442525.1|CI442525
genomic: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: CCCATCGGATTATAGATCCCATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAAEST: gi|88206894|gb|CI205210.1|CI205210
genomic: CCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
EST: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCTATAAG CCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
genomic: CAGAAAGTACTGGCAAAGTCTATAACCCATCGGATTATAGATCCAATAAGgtaaggttta ... tctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAA
aagggtagtgctattttttagtaatttcggtatgtgcctgatttttctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAATTTTCAGCTTCAAAAGAGAAACTGAAAGTTGTTGACTTGATTGGCCGCT
gcctgat putative branch site (score: 32)
tttttct CT-rich tract
tattttttagtaattt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| tccaatggaagctggaaaatatcatatcttcttttaaaagttttcaagggtagtgctattttttagtaatttcggtatgtgcctgatttttctgaaacagCCTCTTGGTGACCTGGGAACACTAGAAGCTGGAGAGAAGGGTGAAGCCCAATTTTCAGCTTCAAAAGAGAAACTGAAAGTTGTTGACTTGATTGGCCGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - -gaagctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgcctg