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' |
...gtgttaatctgcttggcattgttagataagctatttgttaccaactctaattatgttgataactacttgtggtttcttatcctgatcgtttcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGAAGTCTAGCCTAAATTATTACGCTTAACAAGCTATGCTAGAATCATCAG
species | Oryza sativa |
transcript | LOC_Os06g07630.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|88376475|gb|CI535579.1|CI535579
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|86435620|gb|CI106853.1|CI106853
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|88503132|gb|CI430638.1|CI430638
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|88457519|gb|CI536917.1|CI536917
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|86425443|gb|CI070540.1|CI070540
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGATATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|88289586|gb|CI522719.1|CI522719
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTNCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|88455818|gb|CI524237.1|CI524237
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|88829402|gb|CI074272.1|CI074272
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|86845235|gb|CI340348.1|CI340348
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|88510541|gb|CI438047.1|CI438047
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|89168249|gb|CI109453.1|CI109453
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|163929518|gb|EG709297.1|EG709297
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|88967226|gb|CI392181.1|CI392181
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|88408828|gb|CI554150.1|CI554150
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|86600402|gb|CI356159.1|CI356159
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|86873519|gb|CI329897.1|CI329897
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|88487321|gb|CI424592.1|CI424592
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|88460271|gb|CI529346.1|CI529346
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|88469152|gb|CI406423.1|CI406423
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTNTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|88440470|gb|CI549351.1|CI549351
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGEST: gi|163918165|gb|EG715279.1|EG715279
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
EST: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGTGAGATGCTACAGAG GTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
genomic: CTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttc ... tcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAG
tctaattatgttgataactacttgtggtttcttatcctgatcgtttcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGAAGTCTAGCCTAAATTATTACGCTTAACAAGCTATGCTAGAATCATCAG
tcgtttctt CT-rich tract
tttcttat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtgttaatctgcttggcattgttagataagctatttgttaccaactctaattatgttgataactacttgtggtttcttatcctgatcgtttcttgcgcagGTGACTCATGAGGACTTCAACGAAGGCATAATACAGGTGCAGGCTAAGAAGAAGTCTAGCCTAAATTATTACGCTTAACAAGCTATGCTAGAATCATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - ctgcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - atgttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctacttg