1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' |
gtgcagaattgtccaattcagtttcaagaaaatgtcatgttctgttgttacaatctttggctgagggcaaacctttaatttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAACTTGGCTCGTCGAACAGACGGGTTTTCTGGTTCGGATATTGCTGTTTGT
species | Oryza sativa |
transcript | LOC_Os01g04814.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
EST: TTTACATTCCCACTACCCGACCCTGGAAGCAAGGCAACATATGTTTAAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGANEST: gi|29642909|gb|CB647916.1|CB647916
genomic: TTTACATT-CCACTACCCGA-CCTGAAAGCAAGGCAACATATGTTT-AAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAA
EST: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAACEST: gi|29660448|gb|CB656723.1|CB656723
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
EST: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAACEST: gi|29619358|gb|CB624370.1|CB624370
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
EST: GTATTTACATTCCGCTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAGCEST: gi|29619357|gb|CB624369.1|CB624369
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
EST: GTATTTACATTCCGCTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAGCEST: gi|300215967|gb|HO088593.1|HO088593
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
EST: GTATTTACATTCCGCTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAGCEST: gi|29625991|gb|CB631002.1|CB631002
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
EST: GTATTTACATTCCGCTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAGCEST: gi|58600304|gb|CK010832.1|CK010832
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
EST: GTATTTACATTCCGCTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAGCEST: gi|29627907|gb|CB632918.1|CB632918
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
EST: GTATTTACATTCCGCTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAGCEST: gi|29640679|gb|CB645688.1|CB645688
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
EST: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAACEST: gi|29643243|gb|CB648250.1|CB648250
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
EST: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAACEST: gi|29676832|gb|CB673107.1|CB673107
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
EST: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAACEST: gi|396941489|gb|HO188698.1|HO188698
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
EST: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAACEST: gi|58588110|gb|CF986418.1|CF986418
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
EST: GTATTTACATTCCGCTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAGCEST: gi|313080751|gb|HO213548.1|HO213548
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
EST: GTATTTACATTCCGCTACCCGACCTGAAAGCAAGGCAACATATGTTTAAG GTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAGC
genomic: GTATTTACATTCCACTACCCGACCTGAAAGCAAGGCAACATATGTTTAAGgtgcagaatt ... atttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAAC
tgtcatgttctgttgttacaatctttggctgagggcaaacctttaatttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAACTTGGCTCGTCGAACAGACGGGTTTTCTGGTTCGGATATTGCTGTTTGT
ctttaat putative branch site (score: 88)
tttatcc CT-rich tract
aaacctttaatttat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtgcagaattgtccaattcagtttcaagaaaatgtcatgttctgttgttacaatctttggctgagggcaaacctttaatttatccagGTCCATCTCGGGGATACACCACACAACTTAAATGAAAGTGATTTTGAGAACTTGGCTCGTCGAACAGACGGGTTTTCTGGTTCGGATATTGCTGTTTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT