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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTACTATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGGgtaagtccctactcttgaatcatttccaccattattgtttgagttgcttatgtttggctccattttcttattgtgttgtgttgaaatggatccgtgaacag

Basic information

species Arabidopsis thaliana
transcript AT3G55170.1
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|86081163|gb|DR376920.1|DR376920
EST:     CTATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGG                         GGAGAATCAAGGTTCATGAGTTGAGAGATAAATCAAAATCGGATCTTTCTA
genomic: CTATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGGgtaagtccct ... ccgtgaacagCGAGAATCAAGGTTCATGAGTTGAGAGATAAATCAAAATCGGATCTTTCTA
EST: gi|116477581|gb|EG520173.1|EG520173
EST:     CTATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGG                         CGAGAATCAAGGTTCATGAGTTGAGAGATAAATCAAAATCGGATCTTTCTA
genomic: CTATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGGgtaagtccct ... ccgtgaacagCGAGAATCAAGGTTCATGAGTTGAGAGATAAATCAAAATCGGATCTTTCTA
EST: gi|19874839|gb|AU235670.1|AU235670
EST:     CTATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGG                         CGAGAATCAAGGTTCATGAGTTGAGAGATAAATCAAAATCGGATCTTTCTA
genomic: CTATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGGgtaagtccct ... ccgtgaacagCGAGAATCAAGGTTCATGAGTTGAGAGATAAATCAAAATCGGATCTTTCTA
EST: gi|125272287|gb|EL286372.1|EL286372
EST:     TAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGG                         CGAGAATCAAGGTT
genomic: TAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGGgtaagtccct ... ccgtgaacagCGAGAATCAAGGTT
EST: gi|222358188|gb|GH717948.1|GH717948
EST:     GTCAGAGAGGGCTCGAAGACGCCATGG                         CGAGAATCAAGGTTCATGAGTTGAGAGATAAATCAAAATCGGATCTTTCTA
genomic: GTCAGAGAGGGCTCGAAGACGCCATGGgtaagtccct ... ccgtgaacagCGAGAATCAAGGTTCATGAGTTGAGAGATAAATCAAAATCGGATCTTTCTA
EST: gi|124995210|gb|EL067479.1|EL067479
EST:     CTATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGG                         CGAGAATCAAGG
genomic: CTATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGGgtaagtccct ... ccgtgaacagCGAGAATCAAGG
EST: gi|124995125|gb|EL067394.1|EL067394
EST:     ATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGG                         CGAGAATCAAGGTT
genomic: ATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGGgtaagtccct ... ccgtgaacagCGAGAATCAAGGTT
EST: gi|124861635|gb|EH946072.1|EH946072
EST:     ATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGG                         CGAGAATCAAGGTTCATGAGTTG
genomic: ATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGGgtaagtccct ... ccgtgaacagCGAGAATCAAGGTTCATGAGTTG
EST: gi|164132679|gb|ES011672.1|ES011672
EST:     CTATAGCAGTGCAAAGAGATTGAGTCAGAGAGGGCTCGAAGACGCCATGG                         CGAGAATCAAGG
genomic: CTATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGGgtaagtccct ... ccgtgaacagCGAGAATCAAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTACTATAGCAGTGCAAAGAGACTGAGTCAGAGAGGGCTCGAAGACGCCATGGgtaagtccctactcttgaatcatttccaccattattgtttgagttgcttatgtttggctccattttcttattgtgttgtgttgaaatggatccgtgaacag

- - - - - -  GCAAAG
- - - - - - - - AAGAGA
- - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - -  CGAAGA