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' |
gtaatgtatagaacacattttcgttctgtttcttggtatcatatttggctactcatgcacaatgagataaatagtgcacaaatatgattccgttgatcgtctattgtgaataccatgagcttttgaccttttgctgatcttagcaaatgcattgtcatgtgtcctcttatccagGACACGACGAAGAAGCTTGCAAGAGATGCCTTCTGTTCTTGGGTGCGCGCCTACACTGCCCACCGAGGTGAACTGAAGAAGATTTTTATGGTCAAGAAGC
species | Oryza sativa |
transcript | LOC_Os05g01990.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
EST: CAGAGAGCATTGGAAAGTTTTGTCACATCCGAG GACACGACGAAGAAGCTTGCAAGAGATGCCTTCTGTTCTCGGGTGCGCGCCEST: gi|88837484|gb|CI078844.1|CI078844
genomic: CAGAGAGCATTGGAAAGTTTTGTCACATCCGAGgtaatgtata ... tcttatccagGACACGACGAAGAAGCTTGCAAGAGATGCCTTCTGTTCTTGGGTGCGCGCC
EST: GGAAAGTTTTGTCACATCCGAG GACACGACGAAGAAGCTTGCAAGAGATGCCTTCTGTTCTCGGGTGCGCGCCEST: gi|27548968|gb|CA767080.2|CA767080
genomic: GGAAAGTTTTGTCACATCCGAGgtaatgtata ... tcttatccagGACACGACGAAGAAGCTTGCAAGAGATGCCTTCTGTTCTTGGGTGCGCGCC
EST: GGATAATGTCTTTACAGAGAGCATTGGAAAGTTTTGTCACATCTGAG GACACGACGAAGAAGCTTGCAAGAGATGCCTTCTGTTCTTGGGTGCGCGCC
genomic: GGATAATGTCTTTACAGAGAGCATTGGAAAGTTTTGTCACATCCGAGgtaatgtata ... tcttatccagGACACGACGAAGAAGCTTGCAAGAGATGCCTTCTGTTCTTGGGTGCGCGCC
cttttgaccttttgctgatcttagcaaatgcattgtcatgtgtcctcttatccagGACACGACGAAGAAGCTTGCAAGAGATGCCTTCTGTTCTTGGGTGCGCGCCTACACTGCCCACCGAGGTGAACTGAAGAAGATTTTTATGGTCAAGAAGC
tgctgat putative branch site (score: 6)
tcctcttatcc putative PPT
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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaatgtatagaacacattttcgttctgtttcttggtatcatatttggctactcatgcacaatgagataaatagtgcacaaatatgattccgttgatcgtctattgtgaataccatgagcttttgaccttttgctgatcttagcaaatgcattgtcatgtgtcctcttatccagGACACGACGAAGAAGCTTGCAAGAGATGCCTTCTGTTCTTGGGTGCGCGCCTACACTGCCCACCGAGGTGAACTGAAGAAGATTTTTATGGTCAAGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC