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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAAAGTTTTAACAGATCTTGTTGAAGGTCTGGAAGAGCCCAAAGTGGCTTTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAGgtatgattgatgacttgcttcagttctcgactagtttttttattgcatttcactaattagtgaaaattgtag

Basic information

species Arabidopsis thaliana
transcript AT5G17530.1
intron # 16
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|164226964|gb|ES198456.1|ES198456
EST:     CGACAAGAATCACCCTGACCTTGAAGGAAG                         TGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
genomic: CGACAAGAATCACCCTGACCTTGAAGGAAGgtatgattga ... aaaattgtagTGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
EST: gi|86075023|gb|DR370780.1|DR370780
EST:     TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAG                         TGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
genomic: TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAGgtatgattga ... aaaattgtagTGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
EST: gi|116416532|gb|EG459124.1|EG459124
EST:     TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAG                         TGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
genomic: TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAGgtatgattga ... aaaattgtagTGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
EST: gi|116416533|gb|EG459125.1|EG459125
EST:     TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAG                         TGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
genomic: TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAGgtatgattga ... aaaattgtagTGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
EST: gi|116424751|gb|EG467343.1|EG467343
EST:     TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAG                         TGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
genomic: TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAGgtatgattga ... aaaattgtagTGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
EST: gi|125210207|gb|EL225161.1|EL225161
EST:     TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAG                         TGATTTCCGGGAGTATG
genomic: TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAGgtatgattga ... aaaattgtagTGATTTCCGGGAGTATG
EST: gi|86023635|gb|DR319388.1|DR319388
EST:     TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAG                         TGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
genomic: TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAGgtatgattga ... aaaattgtagTGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
EST: gi|164219527|gb|ES151441.1|ES151441
EST:     CACCCTGACCTTGAAGGAAG                         TGATTTCCGGG-GTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
genomic: CACCCTGACCTTGAAGGAAGgtatgattga ... aaaattgtagTGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
EST: gi|86023634|gb|DR319387.1|DR319387
EST:     TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAG                         TGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT
genomic: TTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAGgtatgattga ... aaaattgtagTGATTTCCGGGAGTATGGAGAGAAGGTCCTGCAACACGTGTCGAACTCAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCAAAGTTTTAACAGATCTTGTTGAAGGTCTGGAAGAGCCCAAAGTGGCTTTAGAACTGAGGCTTAAAATCGACAAGAATCACCCTGACCTTGAAGGAAGgtatgattgatgacttgcttcagttctcgactagtttttttattgcatttcactaattagtgaaaattgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA