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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtgtgaacgctctctttatctctaatgtaggttatttgtttgtgtttgctgcctttttgtacttgatgtgtatattcttgagttacatatgcagCTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAGCTTGAGAAACAG

Basic information

species Arabidopsis thaliana
transcript AT4G25070.2
intron # 3
splice site 3'
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|116426396|gb|EG468988.1|EG468988
EST:     TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG                         CTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
genomic: TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAGgtcagtgtga ... acatatgcagCTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
EST: gi|116426404|gb|EG468996.1|EG468996
EST:     TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG                         CTTCAGCGCGCCGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
genomic: TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAGgtcagtgtga ... acatatgcagCTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
EST: gi|116426393|gb|EG468985.1|EG468985
EST:     TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGACAAG                         CTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
genomic: TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAGgtcagtgtga ... acatatgcagCTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
EST: gi|116426400|gb|EG468992.1|EG468992
EST:     TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG                         CTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
genomic: TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAGgtcagtgtga ... acatatgcagCTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
EST: gi|116426386|gb|EG468978.1|EG468978
EST:     ATTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG                         CTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
genomic: ATTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAGgtcagtgtga ... acatatgcagCTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
EST: gi|116426401|gb|EG468993.1|EG468993
EST:     TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG                         CTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
genomic: TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAGgtcagtgtga ... acatatgcagCTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
EST: gi|116426402|gb|EG468994.1|EG468994
EST:     TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG                         CTTCAGCGCGCCGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
genomic: TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAGgtcagtgtga ... acatatgcagCTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
EST: gi|116426395|gb|EG468987.1|EG468987
EST:     TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG                         CTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
genomic: TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAGgtcagtgtga ... acatatgcagCTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
EST: gi|116426391|gb|EG468983.1|EG468983
EST:     TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG                         CTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
genomic: TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAGgtcagtgtga ... acatatgcagCTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
EST: gi|116426407|gb|EG468999.1|EG468999
EST:     TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAG                         CTTCAGCGCGTTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG
genomic: TTAGACATGCTTCAAGAAGAAAACGATAATATAATGGATAAGgtcagtgtga ... acatatgcagCTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgtttgctgcctttttgtacttgatgtgtatattcttgagttacatatgcagCTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAGCTTGAGAAACAG
                     acttgat  putative branch site (score: 5)
 tatattctt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagtgtgaacgctctctttatctctaatgtaggttatttgtttgtgtttgctgcctttttgtacttgatgtgtatattcttgagttacatatgcagCTTCAGCGCGCTGAAGAAAGACGCGAAGCTGCAGAAGCAAGGGCTAAAGAGCTTGAGAAACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT