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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGAAACGCAGAGGACATGGTGAAGAGGGATAAATCTGGCAAGCCTGCTTTGGATAAGGAAGGGAAGCTTCAGATTCTAACCTCTCACACACTCAAGCCAgtaagtccatatctgtaatctgtgttattaccataacataaaccattggaccatatctgatgggagattgtaattattgtttgtag

Basic information

species Arabidopsis thaliana
transcript AT1G09780.1
intron # 6
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|124925548|gb|EL003512.1|EL003512
EST:     CTTCAGATTCTAACCTCTCACACACTTCAAGCCA                         GTGCCAATTGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCG
genomic: CTTCAGATTCTAACCTCTCACACAC-TCAAGCCAgtaagtccat ... ttgtttgtagGTGCCAATTGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCG
EST: gi|125051866|gb|EL123923.1|EL123923
EST:     CCTCTCACACACTCAAGCCA                         GTGCCAATTGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCGT
genomic: CCTCTCACACACTCAAGCCAgtaagtccat ... ttgtttgtagGTGCCAATTGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCGT
EST: gi|86077740|gb|DR373497.1|DR373497
EST:     TGGATAAGGAAGGGAAGCTTCAGATTCTAACCTCTCACACACTCAAGCCA                         GTGCCAATTGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCGT
genomic: TGGATAAGGAAGGGAAGCTTCAGATTCTAACCTCTCACACACTCAAGCCAgtaagtccat ... ttgtttgtagGTGCCAATTGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCGT
EST: gi|125250746|gb|EL264831.1|EL264831
EST:     TGGATAAGGAAGGGAAGCTTCAGATTCTAACCTCTCACACACTCAAGCCA                         GTGCCAATTGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCG
genomic: TGGATAAGGAAGGGAAGCTTCAGATTCTAACCTCTCACACACTCAAGCCAgtaagtccat ... ttgtttgtagGTGCCAATTGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCG
EST: gi|125047374|gb|EL119643.1|EL119643
EST:     ATTCTAACCTCTCACACACTCAAGCCA                         GTGCCAATTGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCGT
genomic: ATTCTAACCTCTCACACACTCAAGCCAgtaagtccat ... ttgtttgtagGTGCCAATTGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCGT
EST: gi|86081556|gb|DR377313.1|DR377313
EST:     TGGATAAGGAAGGGAAGCTTCAGATTCTAACCTCTCACACACTCAAGCCA                         GTGCCAATAGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCGT
genomic: TGGATAAGGAAGGGAAGCTTCAGATTCTAACCTCTCACACACTCAAGCCAgtaagtccat ... ttgtttgtagGTGCCAATTGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCGT
EST: gi|125230240|gb|EL244325.1|EL244325
EST:     CACACACTCAAGCCA                         GTGCCAATTGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCGT
genomic: CACACACTCAAGCCAgtaagtccat ... ttgtttgtagGTGCCAATTGCTATTGGAGGTCCTGGTTTGGCTCAAGGAGTGAGATTCCGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGGAAACGCAGAGGACATGGTGAAGAGGGATAAATCTGGCAAGCCTGCTTTGGATAAGGAAGGGAAGCTTCAGATTCTAACCTCTCACACACTCAAGCCAgtaagtccatatctgtaatctgtgttattaccataacataaaccattggaccatatctgatgggagattgtaattattgtttgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA