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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatctgttggtttggttctctataactatacattcatctttttcactttcagcaagcaacaattttcctttttaacttcacctgttttgttgcttcttatcagATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAACTAGCTCTCCAGGAAGGCTTGTTG

Basic information

species Arabidopsis thaliana
transcript AT2G43750.2
intron # 8
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|125133916|gb|EL175127.1|EL175127
EST:     TATTGTAGATGAATACATAGCG                         ATTTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAACTAGCTCTCCAGGA
genomic: TATTGTAGATGAATACATAGCGgtatgatctg ... ttcttatcagA-TTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAACTAGCTCTCCAGGA
EST: gi|164076220|gb|ES212007.1|ES212007
EST:     TTTGGATCTGGCTATTGTAGATGAATTACTATAGCG                         ATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAACTAGCTCTCCAGGA
genomic: TTTGGATCTGGCTATTGTAGATGAA-TAC-ATAGCGgtatgatctg ... ttcttatcagATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAACTAGCTCTCCAGGA
EST: gi|124985995|gb|EL058545.1|EL058545
EST:     CCCAAGAATTTGGATCTGGCTATTGTAGATGAATACATAGCG                         ATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAACTAGCTCTCCAGGAA
genomic: CCCAAGAATTTGGATCTGGCTATTGTAGATGAATACATAGCGgtatgatctg ... ttcttatcagATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAACTAGCTCTCCAGGAA
EST: gi|124953988|gb|EL029124.1|EL029124
EST:     ATCTGGCTATTGTAGATGAATACATAGCG                         ATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAACTAGCTCTCCAGGAA
genomic: ATCTGGCTATTGTAGATGAATACATAGCGgtatgatctg ... ttcttatcagATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAACTAGCTCTCCAGGAA
EST: gi|124916306|gb|EH990180.1|EH990180
EST:     ATTTGTACCCAAGAATTTTGGATCTGGCTATTGTAGATGAATACATAGCG                         ATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAA
genomic: ATTTGTACCCAAGAA-TTTGGATCTGGCTATTGTAGATGAATACATAGCGgtatgatctg ... ttcttatcagATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAA
EST: gi|125173896|gb|EL195142.1|EL195142
EST:     AATTTGGATCTGGCTATTGTAGATGAATACATAGCG                         ATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGACAACTAGCTCTCCAGGA
genomic: AATTTGGATCTGGCTATTGTAGATGAATACATAGCGgtatgatctg ... ttcttatcagATTTCCAGTGAGGAAGCTATTGAAACCTCGAAG-CAACTAGCTCTCCAGGA
EST: gi|164066675|gb|ES203846.1|ES203846
EST:     TTTGGATCTGGCTATTGTAGATGAATACATAGCG                         ATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAACTAGCTCTCCAGGAA
genomic: TTTGGATCTGGCTATTGTAGATGAATACATAGCGgtatgatctg ... ttcttatcagATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAACTAGCTCTCCAGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagcaagcaacaattttcctttttaacttcacctgttttgttgcttcttatcagATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAACTAGCTCTCCAGGAAGGCTTGTTG
                     ttttaac  putative branch site (score: 2)
                                    ttttgttgcttctt  putative PPT
            aattttcctttttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgatctgttggtttggttctctataactatacattcatctttttcactttcagcaagcaacaattttcctttttaacttcacctgttttgttgcttcttatcagATTTCCAGTGAGGAAGCTATTGAAACCTCGAAGCAACTAGCTCTCCAGGAAGGCTTGTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA