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gtgggaacttgccaacggggattctctccgaccgattcaccgggatttctcccgcggtcgccgctccacccatgttttttttttttttgggttcttgcttgtccgtccctgacgaatgttgcaatggtgtttcttggctgcagTTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTCAACTTCCTCCAGATTCTGTGTG
species | Oryza sativa |
transcript | LOC_Os05g29860.3 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
EST: CCGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCATCTCCACAGCCGCAG TTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTCEST: gi|88954949|gb|CI720300.1|CI720300
genomic: CCGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCATCTCCACAGCCGCAGgtgggaactt ... ttggctgcagTTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTC
EST: CCGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCATCTCCACAGCCGCAG TTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTCEST: gi|58685345|gb|CK074032.1|CK074032
genomic: CCGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCATCTCCACAGCCGCAGgtgggaactt ... ttggctgcagTTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTC
EST: CCGCAGCTTCTCCCGCGGCGAGGCGGCTCAGCCCATCTCCACAGCCGCAG TTGTTGCAGCAAGGAGGCATGGCGGCGGGGGGTGAAGAAGAGAAGCCCTTCEST: gi|88424229|gb|CI581784.1|CI581784
genomic: CCGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCATCTCCACAGCCGCAGgtgggaactt ... ttggctgcagTTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTC
EST: CCGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCATCTCCACAGCCGCAG TTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTCEST: gi|88369502|gb|CI582697.1|CI582697
genomic: CCGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCATCTCCACAGCCGCAGgtgggaactt ... ttggctgcagTTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTC
EST: CCGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCATCTCCACAGCCGCAG TTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTCEST: gi|88594629|gb|CI714587.1|CI714587
genomic: CCGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCATCTCCACAGCCGCAGgtgggaactt ... ttggctgcagTTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTC
EST: CCGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCATCTCCACAGCCGCAG TTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTCEST: gi|58660070|gb|CK048750.1|CK048750
genomic: CCGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCATCTCCACAGCCGCAGgtgggaactt ... ttggctgcagTTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTC
EST: CGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCATACTCCACAGCCGCAG AEST: gi|58660070|gb|CK048750.1|CK048750
genomic: CGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCAT-CTCCACAGCCGCAGgtgggaactt ... ttggctgcag-
EST: CGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCATACTCCACAGCCGCAG A
genomic: CGCAGCTTCTCCCGCGGCGAGGCGGCTCATCCCAT-CTCCACAGCCGCAGgtgggaactt ... ttggctgcag-
gggttcttgcttgtccgtccctgacgaatgttgcaatggtgtttcttggctgcagTTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTCAACTTCCTCCAGATTCTGTGTG
ccctgac putative branch site (score: 3)
tgtttctt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtgggaacttgccaacggggattctctccgaccgattcaccgggatttctcccgcggtcgccgctccacccatgttttttttttttttgggttcttgcttgtccgtccctgacgaatgttgcaatggtgtttcttggctgcagTTGTTGCAGCAAGGAGGCATGGCGGTGGGGGGTGAAGAAGAGAAGCCCTTCAACTTCCTCCAGATTCTGTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC