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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgaaccaacatttataagattgtttccgtatgtatacccctttttgtttctatatatatgttttaaatcgtatttttgattggtaattgtatagAGATTTAGAGCACCGCCAGTTGCCGGAATCCCGCATGCTCTGCCGCCGCATCACACGATGTACAAACCAAATCTTGGATTTGGTGGTGCTCGTCCTCCGG

Basic information

species Arabidopsis thaliana
transcript AT2G20570.1
intron # 4
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|125196231|gb|EL211185.1|EL211185
EST:     ATGCATAACGGGACGACTCCGTATTTACCGACCGTAGCTACG                         AGATTTAGAGCACCGCCAGTTGCCGGAATCCCGCATG
genomic: ATGCATAACGGGACGACTCCGTATTTACCGACCGTAGCTACGgtaatgaacc ... aattgtatagAGATTTAGAGCACCGCCAGTTGCCGGAATCCCGCATG
EST: gi|86088144|gb|DR383903.1|DR383903
EST:     ATGCATAACGGGACGACTCCGTATTTACCGACCGTAGCTACG                         AGATTTAGAGCACCGCCAGTTGCCGGAATCCCGCATGCTCTGCCGCCGCAT
genomic: ATGCATAACGGGACGACTCCGTATTTACCGACCGTAGCTACGgtaatgaacc ... aattgtatagAGATTTAGAGCACCGCCAGTTGCCGGAATCCCGCATGCTCTGCCGCCGCAT
EST: gi|116481675|gb|EG524267.1|EG524267
EST:     ATGCATAACGGGACGACTCCGTATTTACCGACCGTAGCTACG                         AGATTTAGAGCACCGCCAGTTGCCGGAATCCCGCATGCTCTGCCGCCGCAT
genomic: ATGCATAACGGGACGACTCCGTATTTACCGACCGTAGCTACGgtaatgaacc ... aattgtatagAGATTTAGAGCACCGCCAGTTGCCGGAATCCCGCATGCTCTGCCGCCGCAT
EST: gi|125003338|gb|EL075607.1|EL075607
EST:     ATGCATAACGGGACGACTCCGTATTTACCGACCGTAGCTACG                         AGATTTAGAGCACCG
genomic: ATGCATAACGGGACGACTCCGTATTTACCGACCGTAGCTACGgtaatgaacc ... aattgtatagAGATTTAGAGCACCG
EST: gi|124784619|gb|EH874343.1|EH874343
EST:     ATGCATAACGGGACGACTCCGTATTTACCGACCGTAGCTACG                         AGATTTAGAGCACCG
genomic: ATGCATAACGGGACGACTCCGTATTTACCGACCGTAGCTACGgtaatgaacc ... aattgtatagAGATTTAGAGCACCG
EST: gi|116481664|gb|EG524256.1|EG524256
EST:     ATGCATAACGGGACGACTCCGTATTTACCGACCGTAGTTACG                         AGATTTAGAGCACCGCCAGTTGCCGGAATCCCGCATGTTCTGCCGCCGCAT
genomic: ATGCATAACGGGACGACTCCGTATTTACCGACCGTAGCTACGgtaatgaacc ... aattgtatagAGATTTAGAGCACCGCCAGTTGCCGGAATCCCGCATGCTCTGCCGCCGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttttgtttctatatatatgttttaaatcgtatttttgattggtaattgtatagAGATTTAGAGCACCGCCAGTTGCCGGAATCCCGCATGCTCTGCCGCCGCATCACACGATGTACAAACCAAATCTTGGATTTGGTGGTGCTCGTCCTCCGG
                                  ttttgat  putative branch site (score: 4)
       tttctatatatatgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatgaaccaacatttataagattgtttccgtatgtatacccctttttgtttctatatatatgttttaaatcgtatttttgattggtaattgtatagAGATTTAGAGCACCGCCAGTTGCCGGAATCCCGCATGCTCTGCCGCCGCATCACACGATGTACAAACCAAATCTTGGATTTGGTGGTGCTCGTCCTCCGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG