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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattgtattgatcacttcaaatatctataactatttattcatttgtgtttaatttgattgtttttttttttcctttagCTAAATTCATGGGAATTCCTAAAATCTCTCCGATTCTCCTAACCACGGCGGATTTTTCTCACGGAGCTAATTTCGCCATCGCCGACGCTACCGTTCTTGG

Basic information

species Arabidopsis thaliana
transcript AT1G54030.1
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|116463066|gb|EG505658.1|EG505658
EST:     ACAAGCCACCGGACGGTGGTCCGATGGTTCTATCGTTCCTGATTATCTTG                         CTAAATTCATGGGAATTCCTAAAATCTCTCCGATTCTCCTAACCACGGCGG
genomic: ACAAGCCACCGGACGGTGGTCCGATGGTTCTATCGTTCCTGATTATCTTGgtaattgtat ... tttcctttagCTAAATTCATGGGAATTCCTAAAATCTCTCCGATTCTCCTAACCACGGCGG
EST: gi|125170552|gb|EL193971.1|EL193971
EST:     ACAAGCCACCGGACGGTGG-CCGATGGTTCTATCGTTCCTGATTATCTTG                         CTAAAATTCATGGGAATTCCTAAAATCTCTCCGATTCTCC
genomic: ACAAGCCACCGGACGGTGGTCCGATGGTTCTATCGTTCCTGATTATCTTGgtaattgtat ... tttcctttagCTAAA-TTCATGGGAATTCCTAAAATCTCTCCGATTCTCC
EST: gi|164210933|gb|ES179242.1|ES179242
EST:     ACAAGCCACCGGACGGTGGTCCGATGGTTCAATCGTTCCTGATTATCTTG                         CTAAATTCATGGGAATTC
genomic: ACAAGCCACCGGACGGTGGTCCGATGGTTCTATCGTTCCTGATTATCTTGgtaattgtat ... tttcctttagCTAAATTCATGGGAATTC
EST: gi|125312545|gb|EL326630.1|EL326630
EST:     ACAAGCCACCGGACGGTGGTCCGATGGTTCTATCGTTCCTGATTATCTTG                         CTAAATTCATGGGAATTCCTAAAATCTCTCCGATTCTCC
genomic: ACAAGCCACCGGACGGTGGTCCGATGGTTCTATCGTTCCTGATTATCTTGgtaattgtat ... tttcctttagCTAAATTCATGGGAATTCCTAAAATCTCTCCGATTCTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctataactatttattcatttgtgtttaatttgattgtttttttttttcctttagCTAAATTCATGGGAATTCCTAAAATCTCTCCGATTCTCCTAACCACGGCGGATTTTTCTCACGGAGCTAATTTCGCCATCGCCGACGCTACCGTTCTTGG
                             tttgattgtttttttt  CT-rich tract
        tatttattcatttgtg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattgtattgatcacttcaaatatctataactatttattcatttgtgtttaatttgattgtttttttttttcctttagCTAAATTCATGGGAATTCCTAAAATCTCTCCGATTCTCCTAACCACGGCGGATTTTTCTCACGGAGCTAATTTCGCCATCGCCGACGCTACCGTTCTTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT