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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgggaacactaagtatataaatttggttttcatacaaaacacatttttatttgttcatgtgtaataattttgtaaattgtcacacacacacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGCGTCTGCTCAGAAAGGGCAAGATGTTAATGATCATGTAGATAGAGCAAAG

Basic information

species Arabidopsis thaliana
transcript AT2G03850.1
intron # 1
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|86076296|gb|DR372053.1|DR372053
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAACGGAAGCGAAGTGGGACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
EST: gi|86019445|gb|DR315191.1|DR315191
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
EST: gi|86019449|gb|DR315195.1|DR315195
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGTGACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
EST: gi|86019450|gb|DR315196.1|DR315196
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
EST: gi|86019444|gb|DR315190.1|DR315190
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAACGGAAGCGAAGTGTGACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
EST: gi|86019448|gb|DR315194.1|DR315194
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGG-ACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
EST: gi|86019447|gb|DR315193.1|DR315193
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATSATGCCTC                         ACAGAAAGCTTCCGACTACGTCGAAGGAGAAGGGAAGCGAAGTGNGACATG
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGT-GAAGGAGAAGGGAAGCGAAGTGGGACATG
EST: gi|86019446|gb|DR315192.1|DR315192
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
EST: gi|86019442|gb|DR315188.1|DR315188
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGNGACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
EST: gi|86019438|gb|DR315184.1|DR315184
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
EST: gi|19878554|gb|AU239385.1|AU239385
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
EST: gi|47828621|gb|CK118305.1|CK118305
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
EST: gi|86019440|gb|DR315186.1|DR315186
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
EST: gi|86019439|gb|DR315185.1|DR315185
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
EST: gi|86019441|gb|DR315187.1|DR315187
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAAGTGAAGCGANAGTGGGGACAT
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGA-AGTGGG-ACAT
EST: gi|86019443|gb|DR315189.1|DR315189
EST:     AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTC                         ACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC
genomic: AAAGGTGATGGTAACTCAAAACTCGACCCCAAATGGCTCGATGATGCCTCgtaagtctat ... cacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttatttgttcatgtgtaataattttgtaaattgtcacacacacacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGCGTCTGCTCAGAAAGGGCAAGATGTTAATGATCATGTAGATAGAGCAAAG
             atgtgtaataattttg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatgggaacactaagtatataaatttggttttcatacaaaacacatttttatttgttcatgtgtaataattttgtaaattgtcacacacacacacaaaagACAGAAAGCTTCCGACTACGTGAAGGAGAAGGGAAGCGAAGTGGGACATGCGTCTGCTCAGAAAGGGCAAGATGTTAATGATCATGTAGATAGAGCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - -acactaa
- - - - - - - - - - -aatttgg
- - - - - - - - - - - - - - - -tcataca
- - - - - - - - - - - - - - - - - - - aaacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acacaca