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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTTCTTGCTGCTTGTCCCTATCTTTTTGTTGCATTGAGGAGCTGATGAGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctcttccttttgttctgttttagccctatgcatgaagaggaaggtatatagtcaagattgcatgcacttctctgattcaaaggttgcttttcaagctagtaactcaagtagatgatcttctggtgtttctctcccaaatctaaacaatgtctgaatctcatcag

Basic information

species Oryza sativa
transcript LOC_Os06g33940.1
intron # 1
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|88362189|gb|CI608580.1|CI608580
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGTCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88354761|gb|CI614039.1|CI614039
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGGGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88364668|gb|CI612483.1|CI612483
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88390449|gb|CI607485.1|CI607485
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88393347|gb|CI618235.1|CI618235
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88328889|gb|CI646966.1|CI646966
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88340209|gb|CI652558.1|CI652558
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88377590|gb|CI605425.1|CI605425
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88420976|gb|CI620294.1|CI620294
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88351699|gb|CI617424.1|CI617424
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88422882|gb|CI615182.1|CI615182
EST:     AGCTGAGCTAATCAGGGCAGAACCAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGGGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88351049|gb|CI620709.1|CI620709
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88392464|gb|CI612938.1|CI612938
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88390496|gb|CI607532.1|CI607532
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGTGGCGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
EST: gi|88352491|gb|CI615745.1|CI615745
EST:     AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAG                         ATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC
genomic: AGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctc ... atctcatcagATCCTAGGGCCGGCCTGCATCAAAAAGAAGGATGCATCCGAGCGGCGGCGC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTTTTCTTGCTGCTTGTCCCTATCTTTTTGTTGCATTGAGGAGCTGATGAGCTGAGCTAATCAGGGCAGAACAAAGGCAGGAGGATATAGTTTTCCAAGgtttgtgctcttccttttgttctgttttagccctatgcatgaagaggaaggtatatagtcaagattgcatgcacttctctgattcaaaggttgcttttcaagctagtaactcaagtagatgatcttctggtgtttctctcccaaatctaaacaatgtctgaatctcatcag

- - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT