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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgcttcacaaggattacttacaacttctacattcttccaaggaaactgagtttctactaacttgtttgcagATGTGTGATCACGGGTAATGGTCAGAGCGGGTATATGTATCTCGGAAGGCCATGGGGACCATTTGGGAGGGTAGTCCTTGCTTACACTTACATGGACGCG

Basic information

species Arabidopsis thaliana
transcript AT3G29090.1
intron # 4
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|124828381|gb|EH913247.1|EH913247
EST:     GCACAAAGCCGAAAATCGTCTCAGGAATCTACTGGTTATGTATTCTTAAG                         ATGTGTGATCACGGGTAATGGTCAGAGCG
genomic: GCACAAAGCCGAAAATCGTCTCAGGAATCTACTGGTTATGTATTCTTAAGgtctgcttca ... ttgtttgcagATGTGTGATCACGGGTAATGGTCAGAGCG
EST: gi|124737048|gb|EH828450.1|EH828450
EST:     CAAAGCCGAAAATCGTCTCAGGAATCTACTGGTTATGTATTCTTAAG                         ATGTGTGATCACGGGTAATGGTCAGAGCGGGTATATGTATCTCGGAAGGCC
genomic: CAAAGCCGAAAATCGTCTCAGGAATCTACTGGTTATGTATTCTTAAGgtctgcttca ... ttgtttgcagATGTGTGATCACGGGTAATGGTCAGAGCGGGTATATGTATCTCGGAAGGCC
EST: gi|116438151|gb|EG480743.1|EG480743
EST:     GCACAAAGCCGAAAATCGTCTCAGGAATCTACTGGTTATGTATTCTTAAG                         ATGTGTGATCACGGGTAATGGTCAGAGCGGGTATATGTATCTCGGAAGGCC
genomic: GCACAAAGCCGAAAATCGTCTCAGGAATCTACTGGTTATGTATTCTTAAGgtctgcttca ... ttgtttgcagATGTGTGATCACGGGTAATGGTCAGAGCGGGTATATGTATCTCGGAAGGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttacaacttctacattcttccaaggaaactgagtttctactaacttgtttgcagATGTGTGATCACGGGTAATGGTCAGAGCGGGTATATGTATCTCGGAAGGCCATGGGGACCATTTGGGAGGGTAGTCCTTGCTTACACTTACATGGACGCG
                                      tactaac  putative branch site (score: 0)
                                            cttgttt  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctgcttcacaaggattacttacaacttctacattcttccaaggaaactgagtttctactaacttgtttgcagATGTGTGATCACGGGTAATGGTCAGAGCGGGTATATGTATCTCGGAAGGCCATGGGGACCATTTGGGAGGGTAGTCCTTGCTTACACTTACATGGACGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA