1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' |
...gctccaaaaatgcagatgatcttttaccctttttttaacaaagttattttttaggagctttgcattggaaattcactacatgacctgcttgttaatgcagCCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAGGTTCTTTGACGGAATCGACAATTTGGATTATCCTGGCTGTTTTGCTATG
species | Oryza sativa |
transcript | LOC_Os11g39220.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
EST: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAG CCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAGEST: gi|29634318|gb|CB639327.1|CB639327
genomic: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAGgtaaaggatt ... gttaatgcagCCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAG
EST: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAG CCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAGEST: gi|58662421|gb|CK051107.1|CK051107
genomic: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAGgtaaaggatt ... gttaatgcagCCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAG
EST: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAG CCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAGEST: gi|58669497|gb|CK058183.1|CK058183
genomic: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAGgtaaaggatt ... gttaatgcagCCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAG
EST: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAG CCTATGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAGEST: gi|29678050|gb|CB674325.1|CB674325
genomic: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAGgtaaaggatt ... gttaatgcagCCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAG
EST: GCGTCCAGTACAG CCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAGEST: gi|33381891|gb|CF197234.1|CF197234
genomic: GCGTCCAGTACAGgtaaaggatt ... gttaatgcagCCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAG
EST: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAG CCTTTGGGGAGGCTCTATAATAAATCTGGGAACEST: gi|29662987|gb|CB659262.1|CB659262
genomic: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAGgtaaaggatt ... gttaatgcagCCTTTGGGGAGGTTCTATAATAAATCTGGGAAC
EST: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAG CCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAGEST: gi|29632191|gb|CB637200.1|CB637200
genomic: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAGgtaaaggatt ... gttaatgcagCCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAG
EST: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAG CCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAG
genomic: GCCGGCGGCGCCGACATCTCCCTCGGCGTCAAGCTCGGCGTCCAGTACAGgtaaaggatt ... gttaatgcagCCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAG
attttttaggagctttgcattggaaattcactacatgacctgcttgttaatgcagCCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAGGTTCTTTGACGGAATCGACAATTTGGATTATCCTGGCTGTTTTGCTATG
tgttaat putative branch site (score: 41)
ttgttaat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gctccaaaaatgcagatgatcttttaccctttttttaacaaagttattttttaggagctttgcattggaaattcactacatgacctgcttgttaatgcagCCTTTGGGGAGGTTCTATAATAAATCTGGGAACCAAAAAGCACAGAGATAGGTTCTTTGACGGAATCGACAATTTGGATTATCCTGGCTGTTTTGCTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - -aaatgca
- - - - - - - - - - - - - - - - - -taacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctacatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgctt