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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagtttgtgatgtcttaatccatatggttaagtatgtgtgatgaagcatttagatttttggttttctttgttttttaactggtttgattttgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGGCGTTGAATCAGAAGTTTTCTCTCAGTCATAG

Basic information

species Arabidopsis thaliana
transcript AT3G20000.1
intron # 1
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|86035196|gb|DR330949.1|DR330949
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035200|gb|DR330953.1|DR330953
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035193|gb|DR330946.1|DR330946
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035214|gb|DR330967.1|DR330967
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035211|gb|DR330964.1|DR330964
EST:     GAACCTCCCTTSTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035191|gb|DR330944.1|DR330944
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCARGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035194|gb|DR330947.1|DR330947
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035209|gb|DR330962.1|DR330962
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|47829613|gb|CK119297.1|CK119297
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035198|gb|DR330951.1|DR330951
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035210|gb|DR330963.1|DR330963
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035192|gb|DR330945.1|DR330945
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035212|gb|DR330965.1|DR330965
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035204|gb|DR330957.1|DR330957
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035188|gb|DR330941.1|DR330941
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035208|gb|DR330961.1|DR330961
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035195|gb|DR330948.1|DR330948
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035187|gb|DR330940.1|DR330940
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCCAGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTA-CCAGG
EST: gi|86035206|gb|DR330959.1|DR330959
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035197|gb|DR330950.1|DR330950
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035189|gb|DR330942.1|DR330942
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035207|gb|DR330960.1|DR330960
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035215|gb|DR330968.1|DR330968
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|124994163|gb|EL066432.1|EL066432
EST:     CCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: CCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035213|gb|DR330966.1|DR330966
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCAACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035190|gb|DR330943.1|DR330943
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035202|gb|DR330955.1|DR330955
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035199|gb|DR330952.1|DR330952
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035201|gb|DR330954.1|DR330954
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035216|gb|DR330969.1|DR330969
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
EST: gi|86035205|gb|DR330958.1|DR330958
EST:     GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCA                         TGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG
genomic: GAACCTCCCTTCTCCTGTTCCCTATGAGGAACTCCACCGTGAAGCTCTCAgttcagtata ... tgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatttagatttttggttttctttgttttttaactggtttgattttgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGGCGTTGAATCAGAAGTTTTCTCTCAGTCATAG
                                          ttttgcttt  CT-rich tract
                ttttctttgtttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aagtttgtgatgtcttaatccatatggttaagtatgtgtgatgaagcatttagatttttggttttctttgttttttaactggtttgattttgctttgcagTGTCTTTAAAGTCGGACAATTTTGAGGGTTTACGCTTCGACTTTACCAGGGCGTTGAATCAGAAGTTTTCTCTCAGTCATAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
-agtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggtttga