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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTCCAACATGCTCCAAACCCCGATGGCTCTATCAGTTTTCTGGTGATTGGAGATTGGGGTAGGCATGGACTCTACAACCAATCCCAAGTTGCCCTCCAGgtactaatttacatactatatacccatatgtgttgtagtattttaagatcgtttagatggaaacatag

Basic information

species Arabidopsis thaliana
transcript AT1G25230.1
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|86018671|gb|DR314417.1|DR314417
EST:     GAGATTGGGGTANGCATGGACTCTACAACCAATCCCAAGTTACCCTCCAG                         ATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGGTATCGACGGGT
genomic: GAGATTGGGGTAGGCATGGACTCTACAACCAATCCCAAGTTGCCCTCCAGgtactaattt ... ggaaacatagATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGGTATCGACGGGT
EST: gi|86018673|gb|DR314419.1|DR314419
EST:     GAGATTGGGGTAGGCATGGACTCTACAACCAATCCCAAGTTGCCCTCCAG                         ATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGGTATCGACGGGT
genomic: GAGATTGGGGTAGGCATGGACTCTACAACCAATCCCAAGTTGCCCTCCAGgtactaattt ... ggaaacatagATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGGTATCGACGGGT
EST: gi|124884753|gb|EH963655.1|EH963655
EST:     TGGACTCTACAACCAATCCCAAGTTGCCCTCCAG                         ATGGGGAGAATCGGGGAGGAGATGGGTATCAATTTTGTGGTATACGACGGG
genomic: TGGACTCTACAACCAATCCCAAGTTGCCCTCCAGgtactaattt ... ggaaacatagATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGGTAT-CGACGGG
EST: gi|125150678|gb|EL183199.1|EL183199
EST:     GAGATTGGGGTAGGCATGGACTCTACAACCAATCCCAAGTTGCCCTCCAG                         ATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGG
genomic: GAGATTGGGGTAGGCATGGACTCTACAACCAATCCCAAGTTGCCCTCCAGgtactaattt ... ggaaacatagATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGG
EST: gi|86018676|gb|DR314422.1|DR314422
EST:     GAGATTGGGGTAGGCATGGACTCTACAACCAATCCCAAGTTGCCCTCCAG                         ATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGGTATCGACGGGT
genomic: GAGATTGGGGTAGGCATGGACTCTACAACCAATCCCAAGTTGCCCTCCAGgtactaattt ... ggaaacatagATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGGTATCGACGGGT
EST: gi|125011158|gb|EL083427.1|EL083427
EST:     ACTCTACAACCAATCCCAAGTTGCCCTCCAG                         ATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGGTATCGACGGGT
genomic: ACTCTACAACCAATCCCAAGTTGCCCTCCAGgtactaattt ... ggaaacatagATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGGTATCGACGGGT
EST: gi|86018670|gb|DR314416.1|DR314416
EST:     GAGATTGGGGTAGGCATGGACTCTACAACCAATCCCAAGTTGCCCTCCAG                         ATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGGTATCGACGGGT
genomic: GAGATTGGGGTAGGCATGGACTCTACAACCAATCCCAAGTTGCCCTCCAGgtactaattt ... ggaaacatagATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGGTATCGACGGGT
EST: gi|86018677|gb|DR314423.1|DR314423
EST:     GAGATTGGGGTAGGCATGGACTCTACAACCAATCCCAAGTTGCCCTCCAG                         ATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGGTATCGACGGGT
genomic: GAGATTGGGGTAGGCATGGACTCTACAACCAATCCCAAGTTGCCCTCCAGgtactaattt ... ggaaacatagATGGGGAGAATCGGGGAGGAGATGGATATCAATTTTGTGGTATCGACGGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTCCAACATGCTCCAAACCCCGATGGCTCTATCAGTTTTCTGGTGATTGGAGATTGGGGTAGGCATGGACTCTACAACCAATCCCAAGTTGCCCTCCAGgtactaatttacatactatatacccatatgtgttgtagtattttaagatcgtttagatggaaacatag

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