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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGAATTTGGCAAGACAGTCACTCTACACATCTGATGATCGTGACAGCCCAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTGgtaaatttcaattctgttccttcaaagcaatcttcattttctcacattcttgctccctttcatgtctgagcatatttcccttgtag

Basic information

species Oryza sativa
transcript LOC_Os01g42850.1
intron # 15
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|29677767|gb|CB674042.1|CB674042
EST:     CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTG                         GATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
genomic: CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTGgtaaatttca ... tcccttgtagGATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
EST: gi|29672225|gb|CB668500.1|CB668500
EST:     CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTG                         GATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
genomic: CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTGgtaaatttca ... tcccttgtagGATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
EST: gi|29667791|gb|CB664066.1|CB664066
EST:     CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTG                         GATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
genomic: CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTGgtaaatttca ... tcccttgtagGATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
EST: gi|29641126|gb|CB646133.1|CB646133
EST:     CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTG                         GATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
genomic: CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTGgtaaatttca ... tcccttgtagGATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
EST: gi|33682080|gb|CF310319.1|CF310319
EST:     CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTG                         GATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
genomic: CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTGgtaaatttca ... tcccttgtagGATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
EST: gi|29674598|gb|CB670873.1|CB670873
EST:     CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTG                         GATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
genomic: CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTGgtaaatttca ... tcccttgtagGATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
EST: gi|29640245|gb|CB645254.1|CB645254
EST:     CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTG                         GATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
genomic: CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTGgtaaatttca ... tcccttgtagGATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
EST: gi|29627979|gb|CB632990.1|CB632990
EST:     CAAAAGCATCAGCAATACTAGGGCGTTTGAGAGAGAGATGTCCTTCAGTG                         GATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
genomic: CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTGgtaaatttca ... tcccttgtagGATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
EST: gi|29629460|gb|CB634469.1|CB634469
EST:     CAAAAGCATCAGCAATACTAGGGCGTTTGAGAGAGAGATGTCCTTCAGTG                         GATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
genomic: CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTGgtaaatttca ... tcccttgtagGATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
EST: gi|29674600|gb|CB670875.1|CB670875
EST:     CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTG                         GATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
genomic: CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTGgtaaatttca ... tcccttgtagGATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
EST: gi|29642677|gb|CB647684.1|CB647684
EST:     CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTG                         GATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA
genomic: CAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTGgtaaatttca ... tcccttgtagGATGCAAAAGGAATTAAAATGGAAATACCAATGCCAGGCCATCCTGTATCA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCGAATTTGGCAAGACAGTCACTCTACACATCTGATGATCGTGACAGCCCAAAAGCATCAGCAATACTAGGGCGTTTGAAAGAGAGATGTCCTTCAGTGgtaaatttcaattctgttccttcaaagcaatcttcattttctcacattcttgctccctttcatgtctgagcatatttcccttgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG