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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTTTGAGACTTCAGAGTGGTCACAAGTACTGCTTATTGGGACGTTTATCTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAAgtgagtatttcgtatttctgctagacgtatttgtgtgtagacatcgagttatggataccaaatctgtttacttggagaatttgtagaactaggtcactgaaactgatgtttggagtttttgattctaacag

Basic information

species Arabidopsis thaliana
transcript AT4G13170.1
intron # 3
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|124722850|gb|EH814252.1|EH814252
EST:     TGGGACGTTTATCTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAA                         GAACTTGAGACAAAGAGAAAGGAAAGATCACAAGT
genomic: TGGGACGTTTATCTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAAgtgagtattt ... attctaacagGAACTTGAGACAAAGAGAAAGGAAAGATCACAAGT
EST: gi|125316284|gb|EL330369.1|EL330369
EST:     TGGGACGTTTATCTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAA                         GAACTTGAGACAAAGAGAAAGGAAAGATCACA
genomic: TGGGACGTTTATCTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAAgtgagtattt ... attctaacagGAACTTGAGACAAAGAGAAAGGAAAGATCACA
EST: gi|125303358|gb|EL317443.1|EL317443
EST:     CTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAA                         GAACTTGAGACAAAGAGAAAGGAAAGATCACAAGTGATGTATGAGCGTAAG
genomic: CTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAAgtgagtattt ... attctaacagGAACTTGAGACAAAGAGAAAGGAAAGATCACAAGTGATGTATGAGCGTAAG
EST: gi|125207287|gb|EL222241.1|EL222241
EST:     ATACCATTAAA                         GAACTTGAGACAAAGAGAAAGGAAAGATCACAAGTGATGTATGAGCGTAAG
genomic: ATACCATTAAAgtgagtattt ... attctaacagGAACTTGAGACAAAGAGAAAGGAAAGATCACAAGTGATGTATGAGCGTAAG
EST: gi|125269397|gb|EL283482.1|EL283482
EST:     ATGATACCATTAAA                         GAACTTGAGACAAAGAGAAAGGAAAGATCACAAGTGATGTATGAGCGTAAG
genomic: ATGATACCATTAAAgtgagtattt ... attctaacagGAACTTGAGACAAAGAGAAAGGAAAGATCACAAGTGATGTATGAGCGTAAG
EST: gi|124776175|gb|EH866302.1|EH866302
EST:     TGGGACGTTTATCTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAA                         GAACTTGAGACAAAGAGAA-GGAAAGATCACAAGT
genomic: TGGGACGTTTATCTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAAgtgagtattt ... attctaacagGAACTTGAGACAAAGAGAAAGGAAAGATCACAAGT
EST: gi|124721224|gb|EH812626.1|EH812626
EST:     TGAGGTTGGCTGGAACCATTATGATACCATTAAA                         GAACTTGAGACAAAGAGAAAGGAAAGATCACAAGTGATGTATGAGCGTAAG
genomic: TGAGGTTGGCTGGAACCATTATGATACCATTAAAgtgagtattt ... attctaacagGAACTTGAGACAAAGAGAAAGGAAAGATCACAAGTGATGTATGAGCGTAAG
EST: gi|125008408|gb|EL080677.1|EL080677
EST:     TGGGACGTTTACCTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAA                         GAACTTGAGACAAAGAGAAAGGAAAGA
genomic: TGGGACGTTTATCTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAAgtgagtattt ... attctaacagGAACTTGAGACAAAGAGAAAGGAAAGA
EST: gi|125258886|gb|EL272971.1|EL272971
EST:     TGGGACGTTTATCTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAA                         GAACTTGAGACAAAGAGAAAGGAAAGATCACAAGTGATGTATGAGCGTAAG
genomic: TGGGACGTTTATCTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAAgtgagtattt ... attctaacagGAACTTGAGACAAAGAGAAAGGAAAGATCACAAGTGATGTATGAGCGTAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTTTTGAGACTTCAGAGTGGTCACAAGTACTGCTTATTGGGACGTTTATCTTCTGAGGTTGGCTGGAACCATTATGATACCATTAAAgtgagtatttcgtatttctgctagacgtatttgtgtgtagacatcgagttatggataccaaatctgtttacttggagaatttgtagaactaggtcactgaaactgatgtttggagtttttgattctaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA