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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgtttaatctcttcttattttgatttgaattcgatgtagacattgctgtgtttgtgatttagatgtttaagctttggtggtgatgacatttttacagGATGGTGAGGTTTGGACTTTCACTGTTAGAGCTTTTGATTCTTCTCGTCCTGAACGTACCATTAGTGTTAGCTACGATGGTTTCGCTGAAG

Basic information

species Arabidopsis thaliana
transcript AT3G22960.1
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|124923871|gb|EL002018.1|EL002018
EST:     GTGAGATTCATATGGGAGATCTTGGTGGTGAAGCTTCAGCTAAAGCAGAG                         GATGGTGAGGT
genomic: GTGAGATTCATATGGGAGATCTTGGTGGTGAAGCTTCAGCTAAAGCAGAGgttgtttaat ... atttttacagGATGGTGAGGT
EST: gi|125012866|gb|EL085135.1|EL085135
EST:     GTGAGATTCATATGGGAGATCTTGGTGGTGAAGCTTCAGCTAAAGCAGAG                         GATGGTGAGGTTTGGACTTTCA
genomic: GTGAGATTCATATGGGAGATCTTGGTGGTGAAGCTTCAGCTAAAGCAGAGgttgtttaat ... atttttacagGATGGTGAGGTTTGGACTTTCA
EST: gi|125045702|gb|EL117971.1|EL117971
EST:     GTGAGATTCATATGGGAGATCTTGGTGGTGAAGCTTCAGCTAAAGCAGAG                         GATGGTGAGGT
genomic: GTGAGATTCATATGGGAGATCTTGGTGGTGAAGCTTCAGCTAAAGCAGAGgttgtttaat ... atttttacagGATGGTGAGGT
EST: gi|124931795|gb|EL009119.1|EL009119
EST:     GTGAGATTCATATGGGAGATCTTGGTGGTGAAGCTTCAGCTAAAGCAGAG                         GATGGTGAGGTTTGG
genomic: GTGAGATTCATATGGGAGATCTTGGTGGTGAAGCTTCAGCTAAAGCAGAGgttgtttaat ... atttttacagGATGGTGAGGTTTGG
EST: gi|47830818|gb|CK120502.1|CK120502
EST:     GTGAGATTCATATGGGAGATCTTGGTGGTGAAGCTTCAGCTAAAGCAGAG                         GATGGTGAGGTTTGGACTTTCACTGTTAGAGCTTTTGATTCTTCTCGTCCT
genomic: GTGAGATTCATATGGGAGATCTTGGTGGTGAAGCTTCAGCTAAAGCAGAGgttgtttaat ... atttttacagGATGGTGAGGTTTGGACTTTCACTGTTAGAGCTTTTGATTCTTCTCGTCCT
EST: gi|125089893|gb|EL148092.1|EL148092
EST:     CTAAAGCAGAG                         GATGGTGAGGTTTGGACTTTCACTGTTAGAGCTTTTGATTCTTCTCGTCCT
genomic: CTAAAGCAGAGgttgtttaat ... atttttacagGATGGTGAGGTTTGGACTTTCACTGTTAGAGCTTTTGATTCTTCTCGTCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctgtgtttgtgatttagatgtttaagctttggtggtgatgacatttttacagGATGGTGAGGTTTGGACTTTCACTGTTAGAGCTTTTGATTCTTCTCGTCCTGAACGTACCATTAGTGTTAGCTACGATGGTTTCGCTGAAG
                                            cattttt  CT-rich tract
              atttagatgtttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgtttaatctcttcttattttgatttgaattcgatgtagacattgctgtgtttgtgatttagatgtttaagctttggtggtgatgacatttttacagGATGGTGAGGTTTGGACTTTCACTGTTAGAGCTTTTGATTCTTCTCGTCCTGAACGTACCATTAGTGTTAGCTACGATGGTTTCGCTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG