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' | 10 5' 3' | 11 5' 3' | 12 5' 3' | 13 5' 3' | 14 5' 3' | 15 5' 3' | 16 5' 3' | 17 5' 3' | 18 5' 3' | 19 5' 3' |
gtgaggtttggttcaaatattctcttatcctacttagtgctatcctaagtgtatatatggaccgtctctaatttatatgtacattttatctgcggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCATTGAGCTCATGCTGTTACATATTGATTCAGAAGTAGCCGGAGGAAAGG
species | Oryza sativa |
transcript | LOC_Os11g48090.4 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|87023349|gb|CI272177.1|CI272177
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88837300|gb|CI078660.1|CI078660
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88522256|gb|CI450001.1|CI450001
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88541755|gb|CI471043.1|CI471043
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTNAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88558000|gb|CI488452.1|CI488452
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88292118|gb|CI534912.1|CI534912
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: AAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88438654|gb|CI543758.1|CI543758
genomic: AAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|86865578|gb|CI330990.1|CI330990
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88322302|gb|CI540270.1|CI540270
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88451259|gb|CI534252.1|CI534252
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88438987|gb|CI531167.1|CI531167
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: TTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88554031|gb|CI484180.1|CI484180
genomic: TTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCGAATTTCCCTCCTGAACCGCCAAGAACCAACCACTGTTGCTGAG CTTNG-AAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATEST: gi|88555485|gb|CI485744.1|CI485744
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTT-GAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGAT
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88466974|gb|CI539770.1|CI539770
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|86873878|gb|CI334410.1|CI334410
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88553651|gb|CI483776.1|CI483776
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88544774|gb|CI472901.1|CI472901
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88527294|gb|CI455437.1|CI455437
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCCCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAACACAGGTAAGTACGGGAGCGCGATCEST: gi|88524261|gb|CI452159.1|CI452159
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88555278|gb|CI485524.1|CI485524
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCNCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|86903584|gb|CI300438.1|CI300438
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|87027466|gb|CI272231.1|CI272231
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|29682977|gb|CB679252.1|CB679252
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|86479042|gb|CI121675.1|CI121675
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|88533748|gb|CI460409.1|CI460409
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCEST: gi|89168449|gb|CI038803.1|CI038803
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
EST: CCCAGCCAATTTCCCTCCTGAACCGCCCAAAACCTACCACTGTTGCTGAG CTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
genomic: CCCAGCAAATTTCCCTCCTGAACCGCCAAAAACCAACCACTGTTGCTGAGgtgaggtttg ... cggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATC
agtgtatatatggaccgtctctaatttatatgtacattttatctgcggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCATTGAGCTCATGCTGTTACATATTGATTCAGAAGTAGCCGGAGGAAAGG
ctctaat putative branch site (score: 3)
tctaatttatatgtac 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtgaggtttggttcaaatattctcttatcctacttagtgctatcctaagtgtatatatggaccgtctctaatttatatgtacattttatctgcggcctgcagCTTGAAAAGCTTATAGGAAAGGTTAAGACAGGTAAGTACGGGAGCGCGATCATTGAGCTCATGCTGTTACATATTGATTCAGAAGTAGCCGGAGGAAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA