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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggattcttcacttttcttcttaaccaaacgactccttcccatactaaacggtttcttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTCAAGAATGAATCCGAGGTTGACGTCAAGAACGAGGGGTCCACCTCGAATC

Basic information

species Arabidopsis thaliana
transcript AT3G32180.1
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|116378923|gb|EG421515.1|EG421515
EST:     TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116378913|gb|EG421505.1|EG421505
EST:     TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116378919|gb|EG421511.1|EG421511
EST:     TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGG
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGG
EST: gi|116378911|gb|EG421503.1|EG421503
EST:     TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTA
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTA
EST: gi|116379917|gb|EG422509.1|EG422509
EST:     TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116379928|gb|EG422520.1|EG422520
EST:     TCCACTTCCCTTCGGAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116379918|gb|EG422510.1|EG422510
EST:     TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116379926|gb|EG422518.1|EG422518
EST:     TCCACTTCCCTTCGGAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116378909|gb|EG421501.1|EG421501
EST:     TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116379910|gb|EG422502.1|EG422502
EST:     TCCACTTCCCTTCGGAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116379920|gb|EG422512.1|EG422512
EST:     TCCACTTCCCTTCGGAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116379919|gb|EG422511.1|EG422511
EST:     TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116379915|gb|EG422507.1|EG422507
EST:     TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116379924|gb|EG422516.1|EG422516
EST:     TCCACTTCCCTTCGGAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116378922|gb|EG421514.1|EG421514
EST:     TCCACTTCCCTTCCTAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCAACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116378915|gb|EG421507.1|EG421507
EST:     TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116376874|gb|EG419466.1|EG419466
EST:     TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116378912|gb|EG421504.1|EG421504
EST:     TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCCCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
EST: gi|116379921|gb|EG422513.1|EG422513
EST:     TCCACTTCCCTTCGGAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAG                         GTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC
genomic: TCCACTTCCCTTCGAAGGAGAAAAAAGAAGCGTACGACTTTATGGATAAGgtaggattct ... cttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttttcttcttaaccaaacgactccttcccatactaaacggtttcttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTCAAGAATGAATCCGAGGTTGACGTCAAGAACGAGGGGTCCACCTCGAATC
                                tactaaa  putative branch site (score: 1)
                                          tttcttgt  putative PPT
                               atactaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggattcttcacttttcttcttaaccaaacgactccttcccatactaaacggtttcttgtactagGTCGTCGACAAGCATCGCCGCCTATGTGATGAGAGGCAGCGGTTGGGCCTCAAGAATGAATCCGAGGTTGACGTCAAGAACGAGGGGTCCACCTCGAATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC