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' |
...tacagttcatcctcctgacagactttgtgctcatatatctgcactacacatgtatttggtgcttatgatgcagtaacacatagtatttttctaattttagGTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCATGGCGGTATTGCACCGATGTTTTTGACTACCTTACTCTTTCAGCAATCA
species | Oryza sativa |
transcript | LOC_Os01g49690.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
EST: CACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAG GTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCAEST: gi|218484413|gb|FG953190.1|FG953190
genomic: CACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAGgtatttcctg ... ctaattttagGTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCA
EST: CACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAG GTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCAEST: gi|24468838|gb|CA305787.1|CA305787
genomic: CACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAGgtatttcctg ... ctaattttagGTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCA
EST: ACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAG GTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCAEST: gi|27577318|gb|CB000013.1|CB000013
genomic: ACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAGgtatttcctg ... ctaattttagGTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCA
EST: CACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAG GTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCAEST: gi|27577630|gb|CB000325.1|CB000325
genomic: CACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAGgtatttcctg ... ctaattttagGTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCA
EST: CACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAG GTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCAEST: gi|27577051|gb|CA999745.1|CA999745
genomic: CACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAGgtatttcctg ... ctaattttagGTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCA
EST: CACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAG GTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCAEST: gi|27334364|gb|CA882815.1|CA882815
genomic: CACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAGgtatttcctg ... ctaattttagGTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCA
EST: CACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAG GTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCAEST: gi|29686455|gb|CB682730.1|CB682730
genomic: CACACATAACGCTTCTGCGTGGAAATCATGAAAGCAGACAGTTGACACAGgtatttcctg ... ctaattttagGTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCA
EST: GAAATCATGAAAGCAGACAGTTGACACAG GTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCA
genomic: GAAATCATGAAAGCAGACAGTTGACACAGgtatttcctg ... ctaattttagGTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCA
acacatgtatttggtgcttatgatgcagtaacacatagtatttttctaattttagGTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCATGGCGGTATTGCACCGATGTTTTTGACTACCTTACTCTTTCAGCAATCA
ttctaat putative branch site (score: 47)
tatttttct CT-rich tract
acatagtatttttcta 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| tacagttcatcctcctgacagactttgtgctcatatatctgcactacacatgtatttggtgcttatgatgcagtaacacatagtatttttctaattttagGTGTATGGTTTCTACGATGAGTGCCAAAGGAAGTATGGGAATGCGAATGCATGGCGGTATTGCACCGATGTTTTTGACTACCTTACTCTTTCAGCAATCA
- - - - - cctcctg
- - - - - - - - - - - -tttgtgc
- - - - - - - - - - - - - - - - - - atctgca
- - - - - - - - - - - - - - - - - - - - - - - - catgtat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acacata