1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' |
gttggtgctcttcttcttcttcttcttgctgctgcagctggtggtgttgttttttttattggcggggtcggtttcctgctctgttttgttaagtcatattgtgctgtcctggatcttgatccgacgtccgtccgtacgcactcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCGGAGGAGGCCATCGTGGCTGACAGCAACGGCAAGGAGGAGGAGGTCGGGG
species | Oryza sativa |
transcript | LOC_Os01g63770.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCGEST: gi|58666258|gb|CK054944.1|CK054944
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCG
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCGEST: gi|58662608|gb|CK051294.1|CK051294
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCG
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGACAGGCEST: gi|58591386|gb|CF989694.1|CF989694
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAG-CAGGC
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAGGGCGEST: gi|88728995|gb|CI752505.1|CI752505
genomic: C-GGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCG
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCGEST: gi|58671230|gb|CK059916.1|CK059916
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCG
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGEST: gi|88363606|gb|CI608963.1|CI608963
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGG
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCGEST: gi|58662723|gb|CK051409.1|CK051409
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCG
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAEST: gi|88390641|gb|CI609266.1|CI609266
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAA
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCGEST: gi|117224930|gb|CT845982.1|CT845982
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCG
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCGEST: gi|58665062|gb|CK053748.1|CK053748
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCG
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCGEST: gi|58665070|gb|CK053756.1|CK053756
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCG
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCGEST: gi|88572945|gb|CI664516.1|CI664516
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCG
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTACCGAGAAAG CTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCGEST: gi|29646075|gb|CB651082.1|CB651082
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCG
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCGEST: gi|88316154|gb|CI620432.1|CI620432
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCG
EST: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAG CTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCG
genomic: CCGGCTTCCTTGAGCGCGATCTCCAGATCATCTTTTGTGTAGCGAGAAAGgttggtgctc ... actcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCG
catattgtgctgtcctggatcttgatccgacgtccgtccgtacgcactcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCGGAGGAGGCCATCGTGGCTGACAGCAACGGCAAGGAGGAGGAGGTCGGGG
cactcac putative branch site (score: 21)
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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gttggtgctcttcttcttcttcttcttgctgctgcagctggtggtgttgttttttttattggcggggtcggtttcctgctctgttttgttaagtcatattgtgctgtcctggatcttgatccgacgtccgtccgtacgcactcacgcagCTGACGACGGGGAAGGGCGGCGTGGTCAGCATGGTGCCGCGCGAGCAGGCGGAGGAGGCCATCGTGGCTGACAGCAACGGCAAGGAGGAGGAGGTCGGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG