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'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACACTGCTTTTGGTGGAAAGCCTACTAAAGCAGAATACAGCAATGTCGCCTGTGCTGTATTTTGgtaagtattctttctgataggatgaaagtttgctttatttgtgtgtcatattgcaggcactagttacctcaaactatgtgtattgtgtcccggaacaatt...

Basic information

species Arabidopsis thaliana
transcript AT3G24170.3
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|164166871|gb|ES040005.1|ES040005
EST:     GCAATGTCGCCTGTGCTGTATTTTG                         CATACCACCACTAGCTGTAGTGGGTCTCAGCGAAGAAGAAGCAGTAGAACA
genomic: GCAATGTCGCCTGTGCTGTATTTTGgtaagtattc ... tgtcttccagCATACCACCACTAGCTGTAGTGGGTCTCAGCGAAGAAGAAGCAGTAGAACA
EST: gi|116457529|gb|EG500121.1|EG500121
EST:     GGAAAGCCTACTAAAGCAGAATACAGCAATGTCGCCTGTGCTGTATTTTG                         CATACCACCACTAGCTGTAGTGGGTCTCAGCGAAGAAGAAGCAGTAGAACA
genomic: GGAAAGCCTACTAAAGCAGAATACAGCAATGTCGCCTGTGCTGTATTTTGgtaagtattc ... tgtcttccagCATACCACCACTAGCTGTAGTGGGTCTCAGCGAAGAAGAAGCAGTAGAACA
EST: gi|116462906|gb|EG505498.1|EG505498
EST:     GGAAAGCCTACTAAAGCAGAATACAGCAATGTCGCCTGTGCTGTATTTTG                         CATACCACCACTAGCTGTAGTGGGTCTCAGCGAAGAAGAAGCAGTAGAACA
genomic: GGAAAGCCTACTAAAGCAGAATACAGCAATGTCGCCTGTGCTGTATTTTGgtaagtattc ... tgtcttccagCATACCACCACTAGCTGTAGTGGGTCTCAGCGAAGAAGAAGCAGTAGAACA
EST: gi|86085355|gb|DR381114.1|DR381114
EST:     AAAGCAGAATACAGCAATGTCGCCTGTGCTGTA-TTTG                         C
genomic: AAAGCAGAATACAGCAATGTCGCCTGTGCTGTATTTTGgtaagtattc ... tgtcttccag-
EST: gi|86085355|gb|DR381114.1|DR381114
EST:     AAAGCAGAATACAGCAATGTCGCCTGTGCTGTA-TTTG                         C
genomic: AAAGCAGAATACAGCAATGTCGCCTGTGCTGTATTTTGgtaagtattc ... tgtcttccag-
EST: gi|116429472|gb|EG472064.1|EG472064
EST:     GGAAAGCCTACTAAAGCAGAATACAGCAATGTCGCCTGTGCTGTATTTTG                         CATACCACCACTAGCTGTAGTGGGTCTCAGCGAAGAAGAAGCAGTAGAACA
genomic: GGAAAGCCTACTAAAGCAGAATACAGCAATGTCGCCTGTGCTGTATTTTGgtaagtattc ... tgtcttccagCATACCACCACTAGCTGTAGTGGGTCTCAGCGAAGAAGAAGCAGTAGAACA
EST: gi|124810719|gb|EH895585.1|EH895585
EST:     GGAAAGCCTACTAAAGCAGAATACAGCAATGTCGCCTGTGCTGTATTTCG                         CATACCACCACTAGCT
genomic: GGAAAGCCTACTAAAGCAGAATACAGCAATGTCGCCTGTGCTGTATTTTGgtaagtattc ... tgtcttccagCATACCACCACTAGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACACTGCTTTTGGTGGAAAGCCTACTAAAGCAGAATACAGCAATGTCGCCTGTGCTGTATTTTGgtaagtattctttctgataggatgaaagtttgctttatttgtgtgtcatattgcaggcactagttacctcaaactatgtgtattgtgtcccggaacaatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctttct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatgaaa