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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgataattctttacctaaagaatagaattttgcttggagatttgtttatacctctttttttgcatactaactgatctttaatctttgtttttaaacacagAATGTTTGTTTCATCTGTGAAGAGACTGCGTGTGATTAAAAGCTCTGAGATTTCATCTGCCTTGACAT

Basic information

species Arabidopsis thaliana
transcript AT3G16500.1
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|124913381|gb|EH987255.1|EH987255
EST:     TATGAAGACAATGAAGGGGACAAGATGCTTGTTGGGGATGTTCCATGGCA                         AATGTTTGTTTCATCTGTGAAGAGACTG
genomic: TATGAAGACAATGAAGGGGACAAGATGCTTGTTGGGGATGTTCCATGGCAgtaagaatct ... ttaaacacagAATGTTTGTTTCATCTGTGAAGAGACTG
EST: gi|124796509|gb|EH886188.1|EH886188
EST:     GAAGACAATGAAGGGGACAAGATGCTTGTTGGGGATGTTCCATGGCA                         AATGTTTGTTTCATCTGTGAAGAG
genomic: GAAGACAATGAAGGGGACAAGATGCTTGTTGGGGATGTTCCATGGCAgtaagaatct ... ttaaacacagAATGTTTGTTTCATCTGTGAAGAG
EST: gi|164131470|gb|ES031548.1|ES031548
EST:     TATGAAGACAATGAAGGGGACAAGATGCTTGTTGGGGATGTTCCATGGCA                         AATGTTTGTTTCATCTGTGAAGAGACTGCGTGTGATTAAAAGC
genomic: TATGAAGACAATGAAGGGGACAAGATGCTTGTTGGGGATGTTCCATGGCAgtaagaatct ... ttaaacacagAATGTTTGTTTCATCTGTGAAGAGACTGCGTGTGATTAAAAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatacctctttttttgcatactaactgatctttaatctttgtttttaaacacagAATGTTTGTTTCATCTGTGAAGAGACTGCGTGTGATTAAAAGCTCTGAGATTTCATCTGCCTTGACAT
                                    tctttgttttt  CT-rich tract
                            atctttaatctttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgataattctttacctaaagaatagaattttgcttggagatttgtttatacctctttttttgcatactaactgatctttaatctttgtttttaaacacagAATGTTTGTTTCATCTGTGAAGAGACTGCGTGTGATTAAAAGCTCTGAGATTTCATCTGCCTTGACAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - acctaaa
- - - - - - - - - - aatagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgatct