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...aacctcattaagagatatcttccacttcaacaagacgccatcttgtttacaattaacatgtgcagaatctagtattcatatggaaatgtcttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTCCACTTGATGAATTGCGGCCTTTAAGTTGCCAAGGAGAAGATTCACTTG
species | Oryza sativa |
transcript | LOC_Os01g56670.3 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
EST: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTEST: gi|88692969|gb|CI736544.1|CI736544
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
EST: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTEST: gi|88761662|gb|CI771218.1|CI771218
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
EST: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTEST: gi|88579110|gb|CI688081.1|CI688081
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
EST: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTEST: gi|88315165|gb|CI611829.1|CI611829
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
EST: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTEST: gi|88738554|gb|CI762062.1|CI762062
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
EST: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTEST: gi|88404794|gb|CI583601.1|CI583601
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
EST: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAGCATGCTTTTEST: gi|88315352|gb|CI613621.1|CI613621
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
EST: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTEST: gi|88584472|gb|CI702027.1|CI702027
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
EST: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTEST: gi|29678673|gb|CB674948.1|CB674948
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
EST: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTEST: gi|88740319|gb|CI763827.1|CI763827
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
EST: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTEST: gi|88452946|gb|CI574493.1|CI574493
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
EST: TTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTEST: gi|88726361|gb|CI750016.1|CI750016
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
EST: CTTTCGCCGATGGCGTCANGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTEST: gi|88404616|gb|CI581052.1|CI581052
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
EST: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAG GTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAAGATGCTTTT
genomic: CTTTCGCCGATGGCGTCACGCCCTCCGAGGCCCGCCGGCTCCGCGACGAGgtagtgcccg ... ttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTT
tttacaattaacatgtgcagaatctagtattcatatggaaatgtcttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTCCACTTGATGAATTGCGGCCTTTAAGTTGCCAAGGAGAAGATTCACTTG
aattaac putative branch site (score: 2)
tgtctttt putative PPT
aattaacat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| aacctcattaagagatatcttccacttcaacaagacgccatcttgtttacaattaacatgtgcagaatctagtattcatatggaaatgtcttttatgtagGTCAAAGATATGTTCTATCATGCATTTGATGGGTACATGCAACATGCTTTTCCACTTGATGAATTGCGGCCTTTAAGTTGCCAAGGAGAAGATTCACTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA