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' |
gtaagataggtttttcttatctgccccaatggctggtgtatgagtagtctaaatgcttttgttttgttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTTATAAACAAGTCCGAATTGGGGATCCTTTGGAGAATGGTACGTTACTGG
species | Oryza sativa |
transcript | LOC_Os09g26880.3 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|58591281|gb|CF989589.1|CF989589
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|29668655|gb|CB664930.1|CB664930
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|29668604|gb|CB664879.1|CB664879
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|58695697|gb|CK084384.1|CK084384
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|29668613|gb|CB664888.1|CB664888
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|29638871|gb|CB643880.1|CB643880
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAAEST: gi|59930115|gb|AB178657.1|AB178657
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAA
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|29663938|gb|CB660213.1|CB660213
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|88571108|gb|CI662481.1|CI662481
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCGTATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|29673829|gb|CB670104.1|CB670104
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAAGCTG CTTCTTCACGAGAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|29663977|gb|CB660252.1|CB660252
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTATGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|29674834|gb|CB671109.1|CB671109
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|66920685|gb|CX107533.1|CX107533
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|59930145|gb|AB178687.1|AB178687
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTGCATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|59930146|gb|AB178688.1|AB178688
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TGCTGCTGTTGGAACAGCAGGACAAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACCGAAAGCATATACCCGAACATTTCTTGATCAACTTGTTGAGGEST: gi|29673252|gb|CB669527.1|CB669527
genomic: TGCTGCTGTTGGAACAGCAGGACAA-CGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCAC-GAAAGCATATACC-GAACATTTCTTGATCAACTTGTTGAGG
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTTCT-CACGAAAGCATATACCGAACATTTCTTGEST: gi|29668647|gb|CB664922.1|CB664922
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTT-CTTCACGAAAGCATATACCGAACATTTCTTG
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|58592388|gb|CF990696.1|CF990696
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGGGAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|29677488|gb|CB673763.1|CB673763
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCCACTTGTTGAGGGTEST: gi|29668563|gb|CB664838.1|CB664838
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGG-T
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|29633228|gb|CB638237.1|CB638237
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|88307624|gb|CI644660.1|CI644660
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCGTATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|59930143|gb|AB178685.1|AB178685
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTEST: gi|58604471|gb|CK014999.1|CK014999
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
EST: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTG CTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
genomic: TTGCTGCTGTTGGAACAGCAGGACAACGCTGCACTACATGTCGTAGGCTGgtaagatagg ... gttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTT
ctgccccaatggctggtgtatgagtagtctaaatgcttttgttttgttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTTATAAACAAGTCCGAATTGGGGATCCTTTGGAGAATGGTACGTTACTGG
tgttaac putative branch site (score: 50)
ttttgtt CT-rich tract
ttttgttttgttaa 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaagataggtttttcttatctgccccaatggctggtgtatgagtagtctaaatgcttttgttttgttaacacagCTTCTTCACGAAAGCATATACCGAACATTTCTTGATCAACTTGTTGAGGTTTATAAACAAGTCCGAATTGGGGATCCTTTGGAGAATGGTACGTTACTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA