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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTAGGCTAATTCTTTCTCTCTCTACCCGCGGAGAAGGAGAAAGTGAGATTAACGAGAAACCCCAAGAGAGAAAATCTTCATCGACAAAATTCGATTCAGgtgatcaatttctttcatattttcgcaattatttcttggatctgatgttatctactttggaatttcttcgctgcattatcttttgatttgttgttcttgt...

Basic information

species Arabidopsis thaliana
transcript AT1G17280.1
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|125045689|gb|EL117958.1|EL117958
EST:     TAACGAGAAACCCCAAGAGAGAAAATCTTCATCGACAAAATTCGACTCAG                         CTGCTGCAGCTA
genomic: TAACGAGAAACCCCAAGAGAGAAAATCTTCATCGACAAAATTCGATTCAGgtgatcaatt ... ggtgtaacagCTGCTGCAGCTA
EST: gi|164144737|gb|ES156428.1|ES156428
EST:     TAACGAGAAACCCCAAGAGAGAAAATCTTCATCGACAAAATTCGATTCAG                         CTGCTGCAGCTATTC
genomic: TAACGAGAAACCCCAAGAGAGAAAATCTTCATCGACAAAATTCGATTCAGgtgatcaatt ... ggtgtaacagCTGCTGCAGCTATTC
EST: gi|86056972|gb|DR352729.1|DR352729
EST:     TAACGAGAAACCCCAAGAGAGAAAATCTTCATCGACAAAATTCG----A-                         -T--T-CAGCTATTCACTTCGTCCATAGCACGTAGATGGCAGAAAAGGCCT
genomic: TAACGAGAAACCCCAAGAGAGAAAATCTTCATCGACAAAATTCGATTCAGgtgatcaatt ... ggtgtaacagCTGCTGCAGCTATTCACTTCGTCCATAGCACGTAGATGGCAGAAAAGGCCT
EST: gi|116477746|gb|EG520338.1|EG520338
EST:     GAGAAACCCCAAGAGAGAAAATCTTCATCGACAAAATTCGATTCAG                         CTGCTGCAGCTATTCACTTCGTCCATAGCACGTAGATGGCAGAAAAGGCCT
genomic: GAGAAACCCCAAGAGAGAAAATCTTCATCGACAAAATTCGATTCAGgtgatcaatt ... ggtgtaacagCTGCTGCAGCTATTCACTTCGTCCATAGCACGTAGATGGCAGAAAAGGCCT
EST: gi|86056971|gb|DR352728.1|DR352728
EST:     TAACGAGAAACCCCAAGAGAGAAAATCTTCATCGACAAAATTCG----A-                         -T--T-CAGCTATTCACTTCGTCCATAGCACGTAGATGGCAGAAAAGGCCT
genomic: TAACGAGAAACCCCAAGAGAGAAAATCTTCATCGACAAAATTCGATTCAGgtgatcaatt ... ggtgtaacagCTGCTGCAGCTATTCACTTCGTCCATAGCACGTAGATGGCAGAAAAGGCCT
EST: gi|124991297|gb|EL063566.1|EL063566
EST:     AAGAGAGAAAATCTTCATCGACAAAATTCGATTCAG                         CTGCTGCAGCTATTCACTTCGTCCATAG
genomic: AAGAGAGAAAATCTTCATCGACAAAATTCGATTCAGgtgatcaatt ... ggtgtaacagCTGCTGCAGCTATTCACTTCGTCCATAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTAGGCTAATTCTTTCTCTCTCTACCCGCGGAGAAGGAGAAAGTGAGATTAACGAGAAACCCCAAGAGAGAAAATCTTCATCGACAAAATTCGATTCAGgtgatcaatttctttcatattttcgcaattatttcttggatctgatgttatctactttggaatttcttcgctgcattatcttttgatttgttgttcttgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttctttc