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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctcgtatatgctagatacacagacctggaccatgttatatattatctgttattcgctttgcctctttacttattgttttgctctttggttattatcagGAATGTGATCACAATATGGTGCCGCAACAGAGGAAGTATGTACGTGTAAGTTATTTCAGATCTGGTTGGCGAATTAGGAAAG

Basic information

species Arabidopsis thaliana
transcript AT3G13062.1
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|125325354|gb|EL339434.1|EL339434
EST:     TAGCGTGGAAATTGTGG-AGGG-AAGGATAAGTTTTACTGTTTCATCAAG                         GAATGTGATCACAATATGGTG
genomic: TAGCGTGGAAATTGTGGGAGGGGAAGGATAAGTTTTACTGTTTCATCAAGgtaatgatgc ... ttattatcagGAATGTGATCACAATATGGTG
EST: gi|116484403|gb|EG526995.1|EG526995
EST:     TAGCGTGGAAATTGTGGGAGGGGAAGGATAAGTTTTACTGTTTCATCAAG                         GAATGTGATCACAATATGGTGCCGCAACAGAGGAAGTATGTACGTGTAAGT
genomic: TAGCGTGGAAATTGTGGGAGGGGAAGGATAAGTTTTACTGTTTCATCAAGgtaatgatgc ... ttattatcagGAATGTGATCACAATATGGTGCCGCAACAGAGGAAGTATGTACGTGTAAGT
EST: gi|125316100|gb|EL330185.1|EL330185
EST:     AATTGTGGGAGGGGAAGGATAAGTTTTACTGTTTCATCAAG                         GAATGTGATNACAATATGGTGCCGCAACAGAGGAAGTATGTACGTGTAAGT
genomic: AATTGTGGGAGGGGAAGGATAAGTTTTACTGTTTCATCAAGgtaatgatgc ... ttattatcagGAATGTGATCACAATATGGTGCCGCAACAGAGGAAGTATGTACGTGTAAGT
EST: gi|125236155|gb|EL250240.1|EL250240
EST:     CGTGGAAATTGTGGGAGGGGAAGGATAAGTTTTACTGTTTCATCAAG                         GAATGTGATCACAATATGGTGCCGCAACAGAGGAAGTATGTACGTGTAAGT
genomic: CGTGGAAATTGTGGGAGGGGAAGGATAAGTTTTACTGTTTCATCAAGgtaatgatgc ... ttattatcagGAATGTGATCACAATATGGTGCCGCAACAGAGGAAGTATGTACGTGTAAGT
EST: gi|124937897|gb|EL014580.1|EL014580
EST:     TAGCGTGGAAATTGTGGGAGGGGAAGGATAAGTTTTACTGTTTCATCAAG                         GAATGTGATCACAATATGGTGCCGCAACAGAGGAAGTATGTACGT
genomic: TAGCGTGGAAATTGTGGGAGGGGAAGGATAAGTTTTACTGTTTCATCAAGgtaatgatgc ... ttattatcagGAATGTGATCACAATATGGTGCCGCAACAGAGGAAGTATGTACGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctgttattcgctttgcctctttacttattgttttgctctttggttattatcagGAATGTGATCACAATATGGTGCCGCAACAGAGGAAGTATGTACGTGTAAGTTATTTCAGATCTGGTTGGCGAATTAGGAAAG
                     tttacttattgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttctcgtatatgctagatacacagacctggaccatgttatatattatctgttattcgctttgcctctttacttattgttttgctctttggttattatcagGAATGTGATCACAATATGGTGCCGCAACAGAGGAAGTATGTACGTGTAAGTTATTTCAGATCTGGTTGGCGAATTAGGAAAG

- - - - - - - - atacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctttg