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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattacccaagtttctccaaactcttttctccgaacccactgtaattggaacccaagatcaaacccgaatttatctgtatctttcagGATATTCACCTTGTTGTCCCAACGCCCTCTTTGCGTTTCGCATCGACGAACCATGAGGCAAAGGACTTCTTCTCAACGTCATTATCATTGTTTGATAGTG

Basic information

species Arabidopsis thaliana
transcript AT2G04378.2
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|116385000|gb|EG427592.1|EG427592
EST:     TTTTACAAGAGTAAAGAAGATGGGCATTATGATCCCGTTATTAACGAGCG                         GATATTCACCTTGTTGTCCCAACGCCCTCTTTGCGTTTCGCATCGACGAAC
genomic: TTTTACAAGAGTAAAGAAGATGGGCATTATGATCCCGTTATTAACGAGCGgtgattaccc ... tatctttcagGATATTCACCTTGTTGTCCCAACGCCCTCTTTGCGTTTCGCATCGACGAAC
EST: gi|116402024|gb|EG444616.1|EG444616
EST:     TTTTACAAGAGTAAAGAAGATGGGCATTATGATCCCGTTATTAACGAGCG                         GATATTTCACCTTGTTGTCCC
genomic: TTTTACAAGAGTAAAGAAGATGGGCATTATGATCCCGTTATTAACGAGCGgtgattaccc ... tatctttcagGATATT-CACCTTGTTGTCCC
EST: gi|116384499|gb|EG427091.1|EG427091
EST:     TTTTACAAGAGTAAAGAAAATGGGCATTATGATCCCGTTATTAACGAGCG                         GATATTCACCTTGTTGTCCCAACGCCCTCTTTGCGTTTCGCATCGACGAAC
genomic: TTTTACAAGAGTAAAGAAGATGGGCATTATGATCCCGTTATTAACGAGCGgtgattaccc ... tatctttcagGATATTCACCTTGTTGTCCCAACGCCCTCTTTGCGTTTCGCATCGACGAAC
EST: gi|116384498|gb|EG427090.1|EG427090
EST:     TTTTACAAGAGTAAAGAAAATGGGCATTATGATCCCGTTATTAACGAGCG                         GATATTCACCTTGTTGTCCCAACGCCCTCTTTGCGTTTCGCATCGACGAAC
genomic: TTTTACAAGAGTAAAGAAGATGGGCATTATGATCCCGTTATTAACGAGCGgtgattaccc ... tatctttcagGATATTCACCTTGTTGTCCCAACGCCCTCTTTGCGTTTCGCATCGACGAAC
EST: gi|116384496|gb|EG427088.1|EG427088
EST:     TTTTACAAGAGTAAAGAAGATGGGCATTATGATCCCGTTATTAACGAGCG                         GATATTCACCTTGTTGTCCCAACGCCCTCTTTGCGTTTCGCATCGACGAAC
genomic: TTTTACAAGAGTAAAGAAGATGGGCATTATGATCCCGTTATTAACGAGCGgtgattaccc ... tatctttcagGATATTCACCTTGTTGTCCCAACGCCCTCTTTGCGTTTCGCATCGACGAAC
EST: gi|116384490|gb|EG427082.1|EG427082
EST:     TTTTACAAGAGTAAAGAAGATGGGCATTATGATCCCGTTATTAACGAGCG                         GATATTCCCCTTGTTGTCCCAACGCCCTCTTTGCGTTTCGCATCGACGAAC
genomic: TTTTACAAGAGTAAAGAAGATGGGCATTATGATCCCGTTATTAACGAGCGgtgattaccc ... tatctttcagGATATTCACCTTGTTGTCCCAACGCCCTCTTTGCGTTTCGCATCGACGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaacccactgtaattggaacccaagatcaaacccgaatttatctgtatctttcagGATATTCACCTTGTTGTCCCAACGCCCTCTTTGCGTTTCGCATCGACGAACCATGAGGCAAAGGACTTCTTCTCAACGTCATTATCATTGTTTGATAGTG
                                             tatctttc  CT-rich tract
                                   aatttatct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgattacccaagtttctccaaactcttttctccgaacccactgtaattggaacccaagatcaaacccgaatttatctgtatctttcagGATATTCACCTTGTTGTCCCAACGCCCTCTTTGCGTTTCGCATCGACGAACCATGAGGCAAAGGACTTCTTCTCAACGTCATTATCATTGTTTGATAGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG