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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTCTATAGCTTTGGACTACTCCTATGGGAAATGATCTCTGGAAGAATTCCTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGGgtaatggtttctttctcaatttgagtatacctcctaagagtaattttgttgctccgcagatgtccaaaaacttatgcctcctttttctctccgtgtttaatttttcag

Basic information

species Oryza sativa
transcript LOC_Os01g10450.1
intron # 3
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|9864943|gb|AU100693.1|AU100693
EST:     NTTTCGATGACTTAACCCCTCTCCAGGCGGNTTATGCTGTTGCAACTAGG                         CATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
genomic: CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGGgtaatggttt ... aatttttcagCATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
EST: gi|88690023|gb|CI734102.1|CI734102
EST:     CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGG                         CATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
genomic: CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGGgtaatggttt ... aatttttcagCATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
EST: gi|88481368|gb|CI418639.1|CI418639
EST:     CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGG                         CATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
genomic: CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGGgtaatggttt ... aatttttcagCATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
EST: gi|86428281|gb|CI074962.1|CI074962
EST:     CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGG                         CATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
genomic: CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGGgtaatggttt ... aatttttcagCATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
EST: gi|88219042|gb|CI220602.1|CI220602
EST:     CTTTCGATGACTTAACCCCTCTTCAGGCGGCTTATGCTGTTGCAACTAGG                         CATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
genomic: CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGGgtaatggttt ... aatttttcagCATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
EST: gi|88263692|gb|CI366593.1|CI366593
EST:     CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGG                         CATGCGCGACCAGTAATTCCTCCAGAATTTCCAATGGCTCTGAGACCGTTG
genomic: CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGGgtaatggttt ... aatttttcagCATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
EST: gi|58588545|gb|CF986853.1|CF986853
EST:     CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGG                         CATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
genomic: CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGGgtaatggttt ... aatttttcagCATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
EST: gi|88506765|gb|CI434271.1|CI434271
EST:     CCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGG                         CATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
genomic: CCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGGgtaatggttt ... aatttttcagCATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
EST: gi|55410740|gb|CV723116.1|CV723116
EST:     CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGG                         CATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG
genomic: CTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGGgtaatggttt ... aatttttcagCATGCGCGACCAGTAATTCCTCCAGAATGTCCAATGGCTCTGAGACCGTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGTCTATAGCTTTGGACTACTCCTATGGGAAATGATCTCTGGAAGAATTCCTTTCGATGACTTAACCCCTCTCCAGGCGGCTTATGCTGTTGCAACTAGGgtaatggtttctttctcaatttgagtatacctcctaagagtaattttgttgctccgcagatgtccaaaaacttatgcctcctttttctctccgtgtttaatttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT