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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCTGGAAAGATGCAGACGGAGGAGACAGAAGTTGATGGTACTAACTCCTTCACAAGTTCAGTAAAAGTAAAAGCAAAACGCATACTGTCCAAGGCAAAGgtgatttgtttttcttgatagaactgattcaaaattttgtacctgtatttgactctcatctcatgtgatcttccttgcag

Basic information

species Oryza sativa
transcript LOC_Os02g31874.2
intron # 13
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|88326785|gb|CI675486.1|CI675486
EST:     TCACAAGTTCAGTAAAAGTAAAAGCAAAACGCATACTGTCCAAGGCAAAG                         TCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
genomic: TCACAAGTTCAGTAAAAGTAAAAGCAAAACGCATACTGTCCAAGGCAAAGgtgatttgtt ... ttccttgcagTCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
EST: gi|88326986|gb|CI676100.1|CI676100
EST:     TCACAAGTTCAGTAAAAGTAAAAGCAAAACGCATACTGTCCAAGGCAAAG                         TCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
genomic: TCACAAGTTCAGTAAAAGTAAAAGCAAAACGCATACTGTCCAAGGCAAAGgtgatttgtt ... ttccttgcagTCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
EST: gi|88524670|gb|CI453510.1|CI453510
EST:     CTGTCCAAGGCAAAG                         TCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
genomic: CTGTCCAAGGCAAAGgtgatttgtt ... ttccttgcagTCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
EST: gi|88361829|gb|CI681991.1|CI681991
EST:     TCACAAGTTCAGTAAAAGTAAAAGCAAAACGCATACTGTCCAAGGCAAAG                         TCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
genomic: TCACAAGTTCAGTAAAAGTAAAAGCAAAACGCATACTGTCCAAGGCAAAGgtgatttgtt ... ttccttgcagTCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
EST: gi|86414917|gb|CI069320.1|CI069320
EST:     AACGCATACTGTCCAAGGCAAAG                         TCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
genomic: AACGCATACTGTCCAAGGCAAAGgtgatttgtt ... ttccttgcagTCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
EST: gi|87009876|gb|CI277377.1|CI277377
EST:     TCACAAGTTCAGTAAAAGTAAAAGCAGAACGCATACTGTCCAAGGCAAAG                         TCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
genomic: TCACAAGTTCAGTAAAAGTAAAAGCAAAACGCATACTGTCCAAGGCAAAGgtgatttgtt ... ttccttgcagTCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
EST: gi|89168294|gb|CI109498.1|CI109498
EST:     TCACAAGTTCAGTAAAAGTAAAAGCGAAACGCATACTGTCCAAGGCAAAG                         TCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
genomic: TCACAAGTTCAGTAAAAGTAAAAGCAAAACGCATACTGTCCAAGGCAAAGgtgatttgtt ... ttccttgcagTCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
EST: gi|86903740|gb|CI300594.1|CI300594
EST:     CGCATACTGTCCAAGGCAAAG                         TCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
genomic: CGCATACTGTCCAAGGCAAAGgtgatttgtt ... ttccttgcagTCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
EST: gi|88988717|gb|CI039136.1|CI039136
EST:     CGCATACTGTCCAAGGCAAAG                         TCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA
genomic: CGCATACTGTCCAAGGCAAAGgtgatttgtt ... ttccttgcagTCGGCTTGCTCCATGTCACTTGGCCTTGGGGAGGAGACCATCAGCGCTTCA

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCTGGAAAGATGCAGACGGAGGAGACAGAAGTTGATGGTACTAACTCCTTCACAAGTTCAGTAAAAGTAAAAGCAAAACGCATACTGTCCAAGGCAAAGgtgatttgtttttcttgatagaactgattcaaaattttgtacctgtatttgactctcatctcatgtgatcttccttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG