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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacgtgactgattgattatatgtggtttcatgtatgttaagctcgaattcgaattagaagtgtgattatcataagcaaaaagcatcactttgtgaattgtttgtgtggttttgataatcatgttccttatttttcttgtctgactccgtatatagCTATACGGCGGGTGAGGTGGATAAGGTACCGGAACAGCGGGCACAACTTCAGGAGTCGAAAAG

Basic information

species Arabidopsis thaliana
transcript AT5G46860.1
intron # 3
splice site 3'
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|86038439|gb|DR334194.1|DR334194
EST:     AGAGAAACCACTTATACTCCTTTCGTGCCTCAATCTGCTCTTCCCTCTAG                         CTATACGGCGGGTGAGGTGGATAAGGTACCGGAACAGCGGGCACAACTTCA
genomic: AGAGAAACCACTTATACTCCTTTCGTGCCTCAATCTGCTCTTCCCTCTAGgtaacgtgac ... ccgtatatagCTATACGGCGGGTGAGGTGGATAAGGTACCGGAACAGCGGGCACAACTTCA
EST: gi|124883511|gb|EH962413.1|EH962413
EST:     AGAGAAACCACTTATACTCCTTTCGTGCCTCAATCTGCTCTTCCCTCTAG                         CTATACGGCGGGTG
genomic: AGAGAAACCACTTATACTCCTTTCGTGCCTCAATCTGCTCTTCCCTCTAGgtaacgtgac ... ccgtatatagCTATACGGCGGGTG
EST: gi|86038429|gb|DR334184.1|DR334184
EST:     AGAGAAACCACTTATACTCCTTTCGTGCCTCAATCTGCTCTTCCCTCTAG                         CTATACGNCGGNTGAGGTGGATAAGGTACCGGAACAGCGGGCACAACTTCA
genomic: AGAGAAACCACTTATACTCCTTTCGTGCCTCAATCTGCTCTTCCCTCTAGgtaacgtgac ... ccgtatatagCTATACGGCGGGTGAGGTGGATAAGGTACCGGAACAGCGGGCACAACTTCA
EST: gi|124786997|gb|EH876676.1|EH876676
EST:     GCTCTTCCCTCTAG                         CTATACGGCGGGTGAGGTGGATAAGGTACCGGAACAGCGGGCACAACTTCA
genomic: GCTCTTCCCTCTAGgtaacgtgac ... ccgtatatagCTATACGGCGGGTGAGGTGGATAAGGTACCGGAACAGCGGGCACAACTTCA
EST: gi|86038438|gb|DR334193.1|DR334193
EST:     AGAGAAACCACTTATACTCCTTTCGTGCCTCAATCTGCTCTTCCCTCTAG                         CTATACGGCGGGTGAGGTGGATAAGGTACCGGAACAGCGGGCACAACTTCA
genomic: AGAGAAACCACTTATACTCCTTTCGTGCCTCAATCTGCTCTTCCCTCTAGgtaacgtgac ... ccgtatatagCTATACGGCGGGTGAGGTGGATAAGGTACCGGAACAGCGGGCACAACTTCA
EST: gi|124739264|gb|EH830426.1|EH830426
EST:     CTTATACTCCTTTCGTGCCTCAATCTGCTCTTCCCTCTAG                         CTATACGGCGGGTGAGGTGGATAAGGTACCGGAACAGCGGGCACAACTTCA
genomic: CTTATACTCCTTTCGTGCCTCAATCTGCTCTTCCCTCTAGgtaacgtgac ... ccgtatatagCTATACGGCGGGTGAGGTGGATAAGGTACCGGAACAGCGGGCACAACTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgtggttttgataatcatgttccttatttttcttgtctgactccgtatatagCTATACGGCGGGTGAGGTGGATAAGGTACCGGAACAGCGGGCACAACTTCAGGAGTCGAAAAG
                                     gtctgac  putative branch site (score: 3)
                          ttatttttctt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacgtgactgattgattatatgtggtttcatgtatgttaagctcgaattcgaattagaagtgtgattatcataagcaaaaagcatcactttgtgaattgtttgtgtggttttgataatcatgttccttatttttcttgtctgactccgtatatagCTATACGGCGGGTGAGGTGGATAAGGTACCGGAACAGCGGGCACAACTTCAGGAGTCGAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA