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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaattatggatgtactggtatttccacgtttcagttattggcaataatatatttggtcaagatttgatagagaaaagcttggaaaagctttcattttggtattctctcatctcgtctctgtgatacagGATGCTCTGTTAGACAAACACATAGCTGCAGACACTTTCCCCGGTCAACAAGAACAGAACATTGGCCGTCCCATAAAGTCCCTTGCG

Basic information

species Arabidopsis thaliana
transcript AT3G57650.1
intron # 9
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|124749311|gb|EH839441.1|EH839441
EST:     ATGACGCAATTGCACAGTGGTGCAGAGATCAGTTTGTGGCTAAG                         GATGCTCTGTTAGACAAACACATAGCTGCAGACAC
genomic: ATGACGCAATTGCACAGTGGTGCAGAGATCAGTTTGTGGCTAAGgtaaaaatta ... tgtgatacagGATGCTCTGTTAGACAAACACATAGCTGCAGACAC
EST: gi|164193263|gb|ES019638.1|ES019638
EST:     CGCAATTGCACAGTGGTGCAGAGATCAGTTTGTGGCTAAG                         GATGCTCTGTTAGACAAACACATAGCTGCAGATACTTTCCCCGGTCAACAA
genomic: CGCAATTGCACAGTGGTGCAGAGATCAGTTTGTGGCTAAGgtaaaaatta ... tgtgatacagGATGCTCTGTTAGACAAACACATAGCTGCAGACACTTTCCCCGGTCAACAA
EST: gi|125010389|gb|EL082658.1|EL082658
EST:     GCAGAGATCAGTTTGTGGCTAAG                         GATGCTCTGTTAGACAAACACATAGCTG
genomic: GCAGAGATCAGTTTGTGGCTAAGgtaaaaatta ... tgtgatacagGATGCTCTGTTAGACAAACACATAGCTG
EST: gi|86083571|gb|DR379330.1|DR379330
EST:     AATCAGATGACGCAATTGCACAGTGGTGCAGAGATCAGTTTGTGGCTAAG                         GATGCTCTGTTAGACAAACACATAGCTGCAGACACTTTCCCCGGTCAACAA
genomic: AATCAGATGACGCAATTGCACAGTGGTGCAGAGATCAGTTTGTGGCTAAGgtaaaaatta ... tgtgatacagGATGCTCTGTTAGACAAACACATAGCTGCAGACACTTTCCCCGGTCAACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagcttggaaaagctttcattttggtattctctcatctcgtctctgtgatacagGATGCTCTGTTAGACAAACACATAGCTGCAGACACTTTCCCCGGTCAACAAGAACAGAACATTGGCCGTCCCATAAAGTCCCTTGCG
                            ttctctcatctcgtct  CT-rich tract
               tttcatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaaattatggatgtactggtatttccacgtttcagttattggcaataatatatttggtcaagatttgatagagaaaagcttggaaaagctttcattttggtattctctcatctcgtctctgtgatacagGATGCTCTGTTAGACAAACACATAGCTGCAGACACTTTCCCCGGTCAACAAGAACAGAACATTGGCCGTCCCATAAAGTCCCTTGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC