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' |
...aagcatcagtaaggaaatcttgttttctgaaagatcattgtgtctgacagcgttgtaaatttacaaatttgtgatggcatttgctcgttctcgctttcagGCAAGCATGGCGAGTGTGAAGCTGACAGAGCACGCGTACTGGACGCCTGACCCCACGTTCACTAGCTACTTGAACTATGGAGCTGCAATTAGTGAG
species | Oryza sativa |
transcript | LOC_Os03g57690.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
EST: CCATCAAAGAGAAGGCTGGCACGCTACCATAGAAATCCCTTATTGCCCAG GCAAGCATGGCGAGTGTGAAGCTGACAGAGCACTCGTACTGGACGCCTGACEST: gi|38480128|gb|CF964217.1|CF964217
genomic: CCATCAAAGAGAAGGCTGGCACGCCACCATGGAAATCCCTTATTGCCCAGgtaaattctt ... tcgctttcagGCAAGCATGGCGAGTGTGAAGCTGACAGAGCACGCGTACTGGACGCCTGAC
EST: CCATCAAAGAGAAGGCTGGCACGCTACCATGGAAATCCCTTATTGCCCAG GCAAGCATGGCGAGTGTGAAGCTGACAGAGCACTCGTACTGGACGCCTGACEST: gi|86905428|gb|CI285391.1|CI285391
genomic: CCATCAAAGAGAAGGCTGGCACGCCACCATGGAAATCCCTTATTGCCCAGgtaaattctt ... tcgctttcagGCAAGCATGGCGAGTGTGAAGCTGACAGAGCACGCGTACTGGACGCCTGAC
EST: CCATCAAAGAGAAGGCTGGCACGCCACCATGGAAATCCCTTATTGCCCAG GCAAGCATGGCGAGTGTGAAGCTGACAGAGCACGCGTACTGGACGCCTGACEST: gi|38475485|gb|CF959618.1|CF959618
genomic: CCATCAAAGAGAAGGCTGGCACGCCACCATGGAAATCCCTTATTGCCCAGgtaaattctt ... tcgctttcagGCAAGCATGGCGAGTGTGAAGCTGACAGAGCACGCGTACTGGACGCCTGAC
EST: CCATCAAAGAGAAGGCTGGCACGCTACCATGGAAATCCCTTATTGCCCAG GCAAGCATGGCGAGTGTGAAGCTGACAGAGCACTCGTACTGGACGCCGGACEST: gi|55410620|gb|CV722996.1|CV722996
genomic: CCATCAAAGAGAAGGCTGGCACGCCACCATGGAAATCCCTTATTGCCCAGgtaaattctt ... tcgctttcagGCAAGCATGGCGAGTGTGAAGCTGACAGAGCACGCGTACTGGACGCCTGAC
EST: ATGGAAATCCCTTATTGCCCAG GCAAGCATGGCGAGTGTGAAGCTGACAGAGCACGCGTACTGGACGCCTGACEST: gi|58612529|gb|CK040241.1|CK040241
genomic: ATGGAAATCCCTTATTGCCCAGgtaaattctt ... tcgctttcagGCAAGCATGGCGAGTGTGAAGCTGACAGAGCACGCGTACTGGACGCCTGAC
EST: CCATCAAAGAGAAGGCTGGCACGCTACCATGGAAATCCCTTATTGCCCAG GCAAGCATGGCGAGTGTGAAGCTGACAGAGCACTCGTACTGGACGCCTGACEST: gi|218480362|gb|FG968520.1|FG968520
genomic: CCATCAAAGAGAAGGCTGGCACGCCACCATGGAAATCCCTTATTGCCCAGgtaaattctt ... tcgctttcagGCAAGCATGGCGAGTGTGAAGCTGACAGAGCACGCGTACTGGACGCCTGAC
EST: CCATCAAAGA-AA-GCTGGCACGCTACCATGGAAATCCCTTATTGCCCAG GCAAGCATGGCGAGTGTGAAGCTGACAGAGCACTCGTACTGGACGCCTGACEST: gi|218505497|gb|FG958276.1|FG958276
genomic: CCATCAAAGAGAAGGCTGGCACGCCACCATGGAAATCCCTTATTGCCCAGgtaaattctt ... tcgctttcagGCAAGCATGGCGAGTGTGAAGCTGACAGAGCACGCGTACTGGACGCCTGAC
EST: CCATCAAAGAGAAGGCTGGCACGCTACCATGGAAATCCCTTATTGCCCAG GCAAGCATGGCGAGTGTGAAGCTGACAGAGCACTCGTACTGGACGCCTGAC
genomic: CCATCAAAGAGAAGGCTGGCACGCCACCATGGAAATCCCTTATTGCCCAGgtaaattctt ... tcgctttcagGCAAGCATGGCGAGTGTGAAGCTGACAGAGCACGCGTACTGGACGCCTGAC
gacagcgttgtaaatttacaaatttgtgatggcatttgctcgttctcgctttcagGCAAGCATGGCGAGTGTGAAGCTGACAGAGCACGCGTACTGGACGCCTGACCCCACGTTCACTAGCTACTTGAACTATGGAGCTGCAATTAGTGAG
gtctgac putative branch site (score: 66)
ctcgttctcgctttc putative PPT
ttgtaaatttacaaat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| aagcatcagtaaggaaatcttgttttctgaaagatcattgtgtctgacagcgttgtaaatttacaaatttgtgatggcatttgctcgttctcgctttcagGCAAGCATGGCGAGTGTGAAGCTGACAGAGCACGCGTACTGGACGCCTGACCCCACGTTCACTAGCTACTTGAACTATGGAGCTGCAATTAGTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- gcatcag
- - - - -taaggaaa
- - - - - - - - - - - -tttctga
- - - - - - - - - - - - - - - - - - - -gtgtctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgatg