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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGACCTTTCCTTCAATGACCTCTCTGGTTCCATACCTAGTTCCCTCTCTTCATTACGTAAACTCGAGTATCTTGAACTTAGTAGGAACAAGCTTACAGgtgaataactctgtttttttttgtctctattagtcatatccattaatctcatggactaaactaaagtttaaacttccatatag

Basic information

species Arabidopsis thaliana
transcript AT5G06870.1
intron # 1
splice site 5'
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|116454707|gb|EG497299.1|EG497299
EST:     TTCATTACGTAAACTCGAGCATCTTGAACTTAGTAGGAACAAGCTTACAG                         GTCCGATACCAGAGTCATTTGGGACGTTTTCAGGAAAGGTCCCTAGTCTTT
genomic: TTCATTACGTAAACTCGAGTATCTTGAACTTAGTAGGAACAAGCTTACAGgtgaataact ... ttccatatagGTCCGATACCAGAGTCATTTGGGACGTTTTCAGGAAAGGTCCCTAGTCTTT
EST: gi|86037812|gb|DR333567.1|DR333567
EST:     TTCATTACGTAAACTCGAGTATCTTGAACTTAGTAGGAACAAGCTTACAG                         GTCCGATACCAGAGTCATTTGGGACGTTTTCAGGAAAGGTCCCTAGTCTTT
genomic: TTCATTACGTAAACTCGAGTATCTTGAACTTAGTAGGAACAAGCTTACAGgtgaataact ... ttccatatagGTCCGATACCAGAGTCATTTGGGACGTTTTCAGGAAAGGTCCCTAGTCTTT
EST: gi|116486152|gb|EG528744.1|EG528744
EST:     TTCATTACGTAAACTCGAGTATCTTGAACTTAGTAGGAACAAGCTTACAG                         GTCCGATACCAGAGTCATTTGGGACGTTTTCAGGAAAGGTCCCTAGTCTTT
genomic: TTCATTACGTAAACTCGAGTATCTTGAACTTAGTAGGAACAAGCTTACAGgtgaataact ... ttccatatagGTCCGATACCAGAGTCATTTGGGACGTTTTCAGGAAAGGTCCCTAGTCTTT
EST: gi|86037813|gb|DR333568.1|DR333568
EST:     TTCATTACGTAAACTCGAGTATCTTGAACTTAGTAGGAACAAGCTTACAG                         GTCCGATACCAGAGTCATTTGGGACGTTTTCAGGAAAGGTCCCTAGT
genomic: TTCATTACGTAAACTCGAGTATCTTGAACTTAGTAGGAACAAGCTTACAGgtgaataact ... ttccatatagGTCCGATACCAGAGTCATTTGGGACGTTTTCAGGAAAGGTCCCTAGT
EST: gi|116486141|gb|EG528733.1|EG528733
EST:     TTCATTACGTAAACTCGAGTATCTTGAACTTAGTAGGAACAAGCTTACAG                         GTCCGATACCAGAGTCATTTGGGACGTTTTCAGGAAAGGTCCCTAGTCTTT
genomic: TTCATTACGTAAACTCGAGTATCTTGAACTTAGTAGGAACAAGCTTACAGgtgaataact ... ttccatatagGTCCGATACCAGAGTCATTTGGGACGTTTTCAGGAAAGGTCCCTAGTCTTT
EST: gi|86079797|gb|DR375554.1|DR375554
EST:     GGAACAAGCTTACAG                         GTCCGATACCAGAGTCATTT-GGACGTTTTCAGGAAAGGTCCCTAGTCTTT
genomic: GGAACAAGCTTACAGgtgaataact ... ttccatatagGTCCGATACCAGAGTCATTTGGGACGTTTTCAGGAAAGGTCCCTAGTCTTT
EST: gi|124728894|gb|EH820296.1|EH820296
EST:     TTCATTACGTAAACTCGAGTATCTTGAACTTAGTAGGAACAAGCTTACAG                         GTCCGATACCA
genomic: TTCATTACGTAAACTCGAGTATCTTGAACTTAGTAGGAACAAGCTTACAGgtgaataact ... ttccatatagGTCCGATACCA
EST: gi|125027364|gb|EL099633.1|EL099633
EST:     TATCTTGAACTTAGTAGGGACAAGCTTACAG                         GTCCGATACCAGAGTCATTTGGGACGTTTTCAGGAAAGGTCCCTAGTCTTT
genomic: TATCTTGAACTTAGTAGGAACAAGCTTACAGgtgaataact ... ttccatatagGTCCGATACCAGAGTCATTTGGGACGTTTTCAGGAAAGGTCCCTAGTCTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTGACCTTTCCTTCAATGACCTCTCTGGTTCCATACCTAGTTCCCTCTCTTCATTACGTAAACTCGAGTATCTTGAACTTAGTAGGAACAAGCTTACAGgtgaataactctgtttttttttgtctctattagtcatatccattaatctcatggactaaactaaagtttaaacttccatatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT