1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' |
...ttatgtaatcaatgaactattttggtcagtttggtcttgcttacctttttgccctttggcttgtacaagctctggcattgatgagatcttataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCCAGATAGTCCCTATGCTGGTGGAGTTTTCTTAGTGAATATTCATTTCCC
species | Oryza sativa |
transcript | LOC_Os01g60410.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|1631641|gb|C19370.1|C19370
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|58684372|gb|CK073059.1|CK073059
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|58683224|gb|CK071911.1|CK071911
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|112785779|gb|EE591396.1|EE591396
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|163917796|gb|EG712134.1|EG712134
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|58683175|gb|CK071862.1|CK071862
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGG--ATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|38470328|gb|CF954459.1|CF954459
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGGAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|58594364|gb|CF992672.1|CF992672
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|88391945|gb|CI683764.1|CI683764
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|88588887|gb|CI706732.1|CI706732
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|58677585|gb|CK066272.1|CK066272
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|58600178|gb|CK010706.1|CK010706
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|33688145|gb|CF316384.1|CF316384
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: TCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|58592288|gb|CF990596.1|CF990596
genomic: TCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|218501187|gb|FG953295.1|FG953295
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: AGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|33688146|gb|CF316385.1|CF316385
genomic: AGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|87006558|gb|CI294941.1|CI294941
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|58690981|gb|CK079668.1|CK079668
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|33810778|gb|CF331283.1|CF331283
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|58592931|gb|CF991239.1|CF991239
genomic: CATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|3107124|gb|D42862.1|D42862
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: ATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|58600789|gb|CK011317.1|CK011317
genomic: ATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGAGCATTATGGGTCCTCEST: gi|163925769|gb|EG714605.1|EG714605
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCEST: gi|58595019|gb|CF993327.1|CF993327
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
EST: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAG GTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
genomic: CAAGGAACTAAAGGACCTGCAGAAAGATCCTCCAACATCATGCAGTGCAGgtatgagaaa ... ataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTC
tttttgccctttggcttgtacaagctctggcattgatgagatcttataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCCAGATAGTCCCTATGCTGGTGGAGTTTTCTTAGTGAATATTCATTTCCC
cattgat putative branch site (score: 4)
agatcttataaattta 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| ttatgtaatcaatgaactattttggtcagtttggtcttgcttacctttttgccctttggcttgtacaagctctggcattgatgagatcttataaatttagGTCCTGCTGGTGAGGATATGTTCCATTGGCAGGCGACCATTATGGGTCCTCCAGATAGTCCCTATGCTGGTGGAGTTTTCTTAGTGAATATTCATTTCCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caagctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgatga