Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTACAGGGAAGCCGGGGTCGGCAGGGAGATCGCCAAGTACAAGATCATTTTCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAAgtaacaactgctgctgctaaacttgcatgcgcgatcgtcgatgtagttcttggttgtgaattataccttgatcccctctgtttaatttaactgcag

Basic information

species Oryza sativa
transcript LOC_Os01g63990.6
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|29664246|gb|CB660521.1|CB660521
EST:     TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAA                         GAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
genomic: TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAAgtaacaactg ... ttaactgcagGAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
EST: gi|29671647|gb|CB667922.1|CB667922
EST:     TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAA                         GAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
genomic: TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAAgtaacaactg ... ttaactgcagGAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
EST: gi|58693917|gb|CK082604.1|CK082604
EST:     TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAA                         GAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
genomic: TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAAgtaacaactg ... ttaactgcagGAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
EST: gi|8956961|gb|BE230764.1|BE230764
EST:     CTTCCCGGTGTCCCAA                         GAGCTGGCAGAGGMGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
genomic: CTTCCCGGTGTCCCAAgtaacaactg ... ttaactgcagGAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
EST: gi|88694422|gb|CI738460.1|CI738460
EST:     TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAA                         GAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
genomic: TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAAgtaacaactg ... ttaactgcagGAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
EST: gi|88407460|gb|CI586301.1|CI586301
EST:     TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAA                         GAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
genomic: TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAAgtaacaactg ... ttaactgcagGAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
EST: gi|58687089|gb|CK075776.1|CK075776
EST:     TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAA                         GAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
genomic: TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAAgtaacaactg ... ttaactgcagGAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
EST: gi|58685188|gb|CK073875.1|CK073875
EST:     TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAA                         GAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG
genomic: TCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAAgtaacaactg ... ttaactgcagGAGCTGGCAGAGGAGCTGGGGATTTACCTGCTGTACTTCGACAGGGCTGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTACAGGGAAGCCGGGGTCGGCAGGGAGATCGCCAAGTACAAGATCATTTTCTCCCATGGCTTCGCCTCCACCAAGGAATCCGACTTCCCGGTGTCCCAAgtaacaactgctgctgctaaacttgcatgcgcgatcgtcgatgtagttcttggttgtgaattataccttgatcccctctgtttaatttaactgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA