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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagtggattcacctaaaagttctagtcagtgttgtttgaataccatataaccagatattgattgatcatggtgaacacggtccttagtttcttttttcagtttctgttgtcagcattctttctacctttgatacttatctgactgatacctttgacacacttgctgcagTTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGGAGAATGCTGGGTTAAATGTTGAGATGGCCAAGCTCGCCTTCTCAAAAGGCATATGGAG

Basic information

species Arabidopsis thaliana
transcript AT1G55960.1
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|125080391|gb|EL142009.1|EL142009
EST:     GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAG                         TTCCCGGTAGAAATGCGT
genomic: GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAGgcaagtggat ... cttgctgcagTTCCCGGTAGAAATGCGT
EST: gi|124971075|gb|EL044866.1|EL044866
EST:     GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAG                         TTCCCGGTAGAAAT
genomic: GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAGgcaagtggat ... cttgctgcagTTCCCGGTAGAAAT
EST: gi|125252500|gb|EL266585.1|EL266585
EST:     GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAG                         TTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGG
genomic: GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAGgcaagtggat ... cttgctgcagTTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGG
EST: gi|125280240|gb|EL294325.1|EL294325
EST:     TCTGGTTGGCGAATCAGGCAAG                         TTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGGAGAATGCTG
genomic: TCTGGTTGGCGAATCAGGCAAGgcaagtggat ... cttgctgcagTTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGGAGAATGCTG
EST: gi|47828193|gb|CK117877.1|CK117877
EST:     GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAG                         TTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGGAGAATGCTG
genomic: GAAGTATGTACGTGTAAGTTACTTTAGATCTGGTTGGCGAATCAGGCAAGgcaagtggat ... cttgctgcagTTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGGAGAATGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attctttctacctttgatacttatctgactgatacctttgacacacttgctgcagTTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGGAGAATGCTGGGTTAAATGTTGAGATGGCCAAGCTCGCCTTCTCAAAAGGCATATGGAG
                atacttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaagtggattcacctaaaagttctagtcagtgttgtttgaataccatataaccagatattgattgatcatggtgaacacggtccttagtttcttttttcagtttctgttgtcagcattctttctacctttgatacttatctgactgatacctttgacacacttgctgcagTTCCCGGTAGAAATGCGTGTGAGATCAAAATGTTTCACCAGGAGAATGCTGGGTTAAATGTTGAGATGGCCAAGCTCGCCTTCTCAAAAGGCATATGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT