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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAAGCAGAATGTTGAAGCCGCCAAGAAGAAGAACGCCGAGAACAGGAAGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAGgtaaacatttttatcctccaaatacaaatacttggaaactgtagttgatcttctcttttatccttgatag

Basic information

species Arabidopsis thaliana
transcript AT2G01250.1
intron # 2
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|164154512|gb|ES136569.1|ES136569
EST:     AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAG                         GAGAAGGAGTTGAT
genomic: AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAGgtaaacattt ... tccttgatagGAGAAGGAGTTGAT
EST: gi|124716713|gb|EH808115.1|EH808115
EST:     AGCCGAGCAATACTCCAAGGAATATGCCGAGAAG                         GAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAA
genomic: AGCCGAGCAATACTCCAAGGAATATGCCGAGAAGgtaaacattt ... tccttgatagGAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAA
EST: gi|124925967|gb|EL003883.1|EL003883
EST:     AGCCGAGCAATACTCCAAGGAATATGCCGAGAAG                         GAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAAGGGAGGTTTC
genomic: AGCCGAGCAATACTCCAAGGAATATGCCGAGAAGgtaaacattt ... tccttgatagGAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAAGGGAGGTTTC
EST: gi|125066615|gb|EL133428.1|EL133428
EST:     AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAG                         GAGAAGGAGTTGATC
genomic: AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAGgtaaacattt ... tccttgatagGAGAAGGAGTTGATC
EST: gi|125136058|gb|EL176088.1|EL176088
EST:     AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAG                         GAGAAGGAGTTGATCTCGTCGAAACGCGAG
genomic: AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAGgtaaacattt ... tccttgatagGAGAAGGAGTTGATCTCGTTGAAACGCGAG
EST: gi|152034121|gb|BP868106.2|BP868106
EST:     AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAG                         GAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAAGGGAGGTTTC
genomic: AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAGgtaaacattt ... tccttgatagGAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAAGGGAGGTTTC
EST: gi|152038370|gb|BP815237.2|BP815237
EST:     AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAG                         GAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAAGGGAGGTTTC
genomic: AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAGgtaaacattt ... tccttgatagGAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAAGGGAGGTTTC
EST: gi|164204449|gb|ES026714.1|ES026714
EST:     CAATACTCCAAGGAATATGCCGAGAAG                         GAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAAGGGAGGTTTC
genomic: CAATACTCCAAGGAATATGCCGAGAAGgtaaacattt ... tccttgatagGAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAAGGGAGGTTTC
EST: gi|164075113|gb|ES015319.1|ES015319
EST:     AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAG                         GAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAAGGGAGG
genomic: AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAGgtaaacattt ... tccttgatagGAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAAGGGAGG
EST: gi|47828829|gb|CK118513.1|CK118513
EST:     AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAG                         GAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAAGGGAGGTTTC
genomic: AGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAGgtaaacattt ... tccttgatagGAGAAGGAGTTGATCTCGTTGAAACGCGAGGCCAAGCTTAAGGGAGGTTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGAAGCAGAATGTTGAAGCCGCCAAGAAGAAGAACGCCGAGAACAGGAAGCTTATCTTCAAAAGAGCCGAGCAATACTCCAAGGAATATGCCGAGAAGgtaaacatttttatcctccaaatacaaatacttggaaactgtagttgatcttctcttttatccttgatag

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