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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacctttaatacaagctctttcggatcttcttgttattattagttagtcaatacttgaggtgtgatcatgacattgaatctctgtttggtgtttagGATCCACAAATGTCTCCCTTTTTGGAGGCTCTTGGTAACCCTGCAGCATCAGAGCAGTTTGCAGAGCGTATGGCGCAAATGAAAGAAGATCCTGAATTGA

Basic information

species Arabidopsis thaliana
transcript AT2G17390.1
intron # 4
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|164233110|gb|ES158808.1|ES158808
EST:     GAGTTTAGAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAG                         GATCCACAAATGTCTCCCTTTTTTGGAGGCTCTTGGTAACCCTGCAGCATC
genomic: GAGTTTAGAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAGgtacctttaa ... tggtgtttagGATCCACAAATGTCTCCCTTTTT-GGAGGCTCTTGGTAACCCTGCAGCATC
EST: gi|164074172|gb|ES046640.1|ES046640
EST:     GGTAACGCTTTGGTGCAG                         GATCCACAAATGTCTCCCTTTTTGGAGGCTCTTGGTAACCCTGCAGCATCA
genomic: GGTAACGCTTTGGTGCAGgtacctttaa ... tggtgtttagGATCCACAAATGTCTCCCTTTTTGGAGGCTCTTGGTAACCCTGCAGCATCA
EST: gi|116476826|gb|EG519418.1|EG519418
EST:     ATCCTGAGTTTAGAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAG                         GATCCACAAATGTCTCCCTTTTTGGAGGCTCTTGGTAACCCTGCAGCATCA
genomic: ATCCTGAGTTTAGAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAGgtacctttaa ... tggtgtttagGATCCACAAATGTCTCCCTTTTTGGAGGCTCTTGGTAACCCTGCAGCATCA
EST: gi|124745642|gb|EH836454.1|EH836454
EST:     GAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAG                         GATCCACAAATGTCTCCCTTTTTGGAGGCTCTTGGTAA
genomic: GAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAGgtacctttaa ... tggtgtttagGATCCACAAATGTCTCCCTTTTTGGAGGCTCTTGGTAA
EST: gi|124787000|gb|EH876679.1|EH876679
EST:     ATCCTGAGTTTAGAACAATGGCTGAGCGTCTTGGTAACGTTTTGGTGCAG                         GATCCACAAATGTCT
genomic: ATCCTGAGTTTAGAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAGgtacctttaa ... tggtgtttagGATCCACAAATGTCT
EST: gi|86055533|gb|DR351290.1|DR351290
EST:     ATCCTGAGTTTAGAACAATGGCTGAGCGTCTTGGTMACGCTTTGGTGCAG                         GATCCACAAATGTCTCCC
genomic: ATCCTGAGTTTAGAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAGgtacctttaa ... tggtgtttagGATCCACAAATGTCTCCC
EST: gi|86055527|gb|DR351284.1|DR351284
EST:     ATCCTGAGTTTAGAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAG                         GATCCACAAATGTCTCCCTTTTT
genomic: ATCCTGAGTTTAGAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAGgtacctttaa ... tggtgtttagGATCCACAAATGTCTCCCTTTTT
EST: gi|86055523|gb|DR351280.1|DR351280
EST:     ATCCTGAGTTTAGAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAG                         GATCCACAAATGTCTCCCTTTTTTGGAGGC
genomic: ATCCTGAGTTTAGAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAGgtacctttaa ... tggtgtttagGATCCACAAATGTCTCCCTTTTT-GGAGGC
EST: gi|116419184|gb|EG461776.1|EG461776
EST:     ATCCTGAGTTTAGAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAG                         GATCCACAAATGTCTCCCTTTTTGGAGGCTCTTGGTAACCCTGCAGCATCA
genomic: ATCCTGAGTTTAGAACAATGGCTGAGCGTCTTGGTAACGCTTTGGTGCAGgtacctttaa ... tggtgtttagGATCCACAAATGTCTCCCTTTTTGGAGGCTCTTGGTAACCCTGCAGCATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttagtcaatacttgaggtgtgatcatgacattgaatctctgtttggtgtttagGATCCACAAATGTCTCCCTTTTTGGAGGCTCTTGGTAACCCTGCAGCATCAGAGCAGTTTGCAGAGCGTATGGCGCAAATGAAAGAAGATCCTGAATTGA
                                     tctctgttt  CT-rich tract
        aatactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacctttaatacaagctctttcggatcttcttgttattattagttagtcaatacttgaggtgtgatcatgacattgaatctctgtttggtgtttagGATCCACAAATGTCTCCCTTTTTGGAGGCTCTTGGTAACCCTGCAGCATCAGAGCAGTTTGCAGAGCGTATGGCGCAAATGAAAGAAGATCCTGAATTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG