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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagggtacgactaaatgtcagaatctctccaagcttttttatccttcgttatctcactgaagcatgagtcttacacttttcttctagAACTTTCCCGAGGCGGAGAATGTCTCTGCATATGATGGTCTAGAGCTAAGACTAAAAGGTGATGGACTCCGTTATAAGCTAATCGTCCGAACAAGCCAAG

Basic information

species Arabidopsis thaliana
transcript AT4G18810.1
intron # 9
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|86064609|gb|DR360366.1|DR360366
EST:     GAATTGTTTCCACAACAAATAATGGCGGATTTACGAGTGTCCGAACCAAG                         AACTTTCCCGAGGCGGAGAATGTCTCTGCATATGATGGTCTAGAGCTAAGA
genomic: GAATTGTTTCCACAACAAATAATGGCGGATTTACGAGTGTCCGAACCAAGgtaaagggta ... tttcttctagAACTTTCCCGAGGCGGAGAATGTCTCTGCATATGATGGTCTAGAGCTAAGA
EST: gi|124920463|gb|EH994175.1|EH994175
EST:     GAATTGTTTCCACAACAAATAATGGCGGATTTACGAGTGTCCGAACCAAG                         AACTTTCCCGAGGCGGAGAATGTCTCTGCATATGATGGTCTAGAGCTAAGA
genomic: GAATTGTTTCCACAACAAATAATGGCGGATTTACGAGTGTCCGAACCAAGgtaaagggta ... tttcttctagAACTTTCCCGAGGCGGAGAATGTCTCTGCATATGATGGTCTAGAGCTAAGA
EST: gi|125254676|gb|EL268761.1|EL268761
EST:     CAAATAATGGCGGATTTACGAGTGTCCGAACCAAG                         AACTTTCCCGAGGCGGAGAATGTCTCTG
genomic: CAAATAATGGCGGATTTACGAGTGTCCGAACCAAGgtaaagggta ... tttcttctagAACTTTCCCGAGGCGGAGAATGTCTCTG
EST: gi|86064608|gb|DR360365.1|DR360365
EST:     GAATTGTTTCCACAACAAATAATGGCGGATTTACGAGTGTCCGAACCAAG                         AACTTTCCCGAGGCGGAGAATGTCTCTGCATATGATGGTCTAGAGCTAAGA
genomic: GAATTGTTTCCACAACAAATAATGGCGGATTTACGAGTGTCCGAACCAAGgtaaagggta ... tttcttctagAACTTTCCCGAGGCGGAGAATGTCTCTGCATATGATGGTCTAGAGCTAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttttttatccttcgttatctcactgaagcatgagtcttacacttttcttctagAACTTTCCCGAGGCGGAGAATGTCTCTGCATATGATGGTCTAGAGCTAAGACTAAAAGGTGATGGACTCCGTTATAAGCTAATCGTCCGAACAAGCCAAG
                                   gtcttac  putative branch site (score: 3)
                                    tcttacacttttcttc  CT-rich tract
                                            ttttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagggtacgactaaatgtcagaatctctccaagcttttttatccttcgttatctcactgaagcatgagtcttacacttttcttctagAACTTTCCCGAGGCGGAGAATGTCTCTGCATATGATGGTCTAGAGCTAAGACTAAAAGGTGATGGACTCCGTTATAAGCTAATCGTCCGAACAAGCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA