Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCAGCTATCCTTGCGGCAACTGCCCTTGCCGGTGGTTTGGCAATTGCTTACGCTCTCAAAAGGAACAGCGGCAACGAACCGTAAGGATTCTCCGATACGgtaatgtccatctgcgttaaccctttttttttccctaagcttatgtctccggtatgcggggccaacttgcaacttccataattgttactatagggattcc...

Basic information

species Oryza sativa
transcript LOC_Os01g04200.2
intron # 12
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|88843440|gb|CI372340.1|CI372340
EST:     ACGCTCTCAAAAGGAACAGCGGCAACGAACCGTAAGGATTCTCCGATACG                         ACTTCAAAGCACGAAGTATCTATTTTAATGCAGAAAGGAAGCTTTTCTCAA
genomic: ACGCTCTCAAAAGGAACAGCGGCAACGAACCGTAAGGATTCTCCGATACGgtaatgtcca ... gctcttgcagACTTCAAAGCACGAAGTATCTATTTTAATGCAGAAAGGAAGCTTTTCTCAA
EST: gi|86600757|gb|CI356514.1|CI356514
EST:     ACGCTCTCAAAAGGAACAGCGGCAACGAACCGTAAGGATTCTCCGATACG                         ACTTCAAAGCACGAAGTATCTATTTTAATGCAGAAAGGAAGCTTTTCTCAA
genomic: ACGCTCTCAAAAGGAACAGCGGCAACGAACCGTAAGGATTCTCCGATACGgtaatgtcca ... gctcttgcagACTTCAAAGCACGAAGTATCTATTTTAATGCAGAAAGGAAGCTTTTCTCAA
EST: gi|88470616|gb|CI407887.1|CI407887
EST:     ACGCTCTCAAAAGGAACAGCGGCAACGAACCGTAAGGATTCTCCGATACG                         ACTTCAAAGCACGAAGTATCTATTTTAATGCAGAAAGGAAGCTTTTCTCAA
genomic: ACGCTCTCAAAAGGAACAGCGGCAACGAACCGTAAGGATTCTCCGATACGgtaatgtcca ... gctcttgcagACTTCAAAGCACGAAGTATCTATTTTAATGCAGAAAGGAAGCTTTTCTCAA
EST: gi|88259065|gb|CI363358.1|CI363358
EST:     ACGCTCTCAAAAGGAACAGCGGCAACGAACCGTAAGGATTCTCCGATACG                         ACTTCAAAGCACGAAGTATCTATTTTAATGCAGAAAGGAAGCTTTTCTCAA
genomic: ACGCTCTCAAAAGGAACAGCGGCAACGAACCGTAAGGATTCTCCGATACGgtaatgtcca ... gctcttgcagACTTCAAAGCACGAAGTATCTATTTTAATGCAGAAAGGAAGCTTTTCTCAA
EST: gi|88475847|gb|CI413118.1|CI413118
EST:     ACGCTCTCAAAAGGAACAGCGGCAACGAACCGTAAGGATTCTCCGATACG                         ACTTCAAAGCACGAAGTATCTATTTTAATGCAGAAAGGAAGCTTTTCTCAA
genomic: ACGCTCTCAAAAGGAACAGCGGCAACGAACCGTAAGGATTCTCCGATACGgtaatgtcca ... gctcttgcagACTTCAAAGCACGAAGTATCTATTTTAATGCAGAAAGGAAGCTTTTCTCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCAGCTATCCTTGCGGCAACTGCCCTTGCCGGTGGTTTGGCAATTGCTTACGCTCTCAAAAGGAACAGCGGCAACGAACCGTAAGGATTCTCCGATACGgtaatgtccatctgcgttaaccctttttttttccctaagcttatgtctccggtatgcggggccaacttgcaacttccataattgttactatagggattcc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcgggg