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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaaacgtttgcggtttgtcccatcttctttatctaattccttttcctgcatacagttttctgaatcagattgaatatactgtcataaaaacagCTGCAAAGGGACAAAGTTTGTTAGAAGAGATCGAACGAGAGTTCGAAG

Basic information

species Arabidopsis thaliana
transcript AT1G52410.1
intron # 14
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|164236722|gb|ES118485.1|ES118485
EST:     ACAA-TAAGGGCTAGCGATTCAACCGCGGACAATAACGAAGAAGAACACG                         CTGCAAAGGGACAAAGTTTGTTAGAAGAGATCGAACGGGAGTTCGAAGCTG
genomic: ACAACTAAGGGCTAGCGATTCAACCGCGGACAATAACGAAGAAGAACACGgtatgaaacg ... ataaaaacagCTGCAAAGGGACAAAGTTTGTTAGAAGAGATCGAACGAGAGTTCGAAGCTG
EST: gi|164155674|gb|ES159166.1|ES159166
EST:     ACAACTAAGGGCTAGCGATTCAACCGCGGACAATAACGAAGAAGAACACG                         CTGCAAAGGAACAAAGTTTGTTAGAAGAGATCGAACGGGAGTTCGAAGC
genomic: ACAACTAAGGGCTAGCGATTCAACCGCGGACAATAACGAAGAAGAACACGgtatgaaacg ... ataaaaacagCTGCAAAGGGACAAAGTTTGTTAGAAGAGATCGAACGAGAGTTCGAAGC
EST: gi|163976809|gb|ES190539.1|ES190539
EST:     GCTAGCGATTCAACCGCGGACAATAACGAAGAAGAACACG                         CTGCAAAGGGACAAAGTTTGTTAGAAGAGATCGAA
genomic: GCTAGCGATTCAACCGCGGACAATAACGAAGAAGAACACGgtatgaaacg ... ataaaaacagCTGCAAAGGGACAAAGTTTGTTAGAAGAGATCGAA
EST: gi|164030211|gb|ES117437.1|ES117437
EST:     ACAACTAAGGGCTAGCGATTCAACCGCGGACAATAACGAAGAAGAACACG                         CTGCAAAGG-ACAAAGTTTGTTAGAAGAGATCGAACGGGAGTTCGAAGC
genomic: ACAACTAAGGGCTAGCGATTCAACCGCGGACAATAACGAAGAAGAACACGgtatgaaacg ... ataaaaacagCTGCAAAGGGACAAAGTTTGTTAGAAGAGATCGAACGAGAGTTCGAAGC
EST: gi|164215328|gb|ES072449.1|ES072449
EST:     GGGCTAGCGATTCAACCGCGGACAATAACGAAGAAGAACACG                         CTGCAAAGGGACAAAGTTTGTTAGAAGAGATCGAACGGGAGTTCGAAG
genomic: GGGCTAGCGATTCAACCGCGGACAATAACGAAGAAGAACACGgtatgaaacg ... ataaaaacagCTGCAAAGGGACAAAGTTTGTTAGAAGAGATCGAACGAGAGTTCGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttttcctgcatacagttttctgaatcagattgaatatactgtcataaaaacagCTGCAAAGGGACAAAGTTTGTTAGAAGAGATCGAACGAGAGTTCGAAG
                              attgaatata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgaaacgtttgcggtttgtcccatcttctttatctaattccttttcctgcatacagttttctgaatcagattgaatatactgtcataaaaacagCTGCAAAGGGACAAAGTTTGTTAGAAGAGATCGAACGAGAGTTCGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC