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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgagattttccttctctctgtttcaatctctctagcatcaacaagtataaagttcctaactttaactttttacgctacttgaagAGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGAACTCGTAAAGTGAAAGGAGCATCTGTACGTATGGCATTAGTTGAGGAGAGACAATCAA

Basic information

species Arabidopsis thaliana
transcript AT4G10030.1
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|124819061|gb|EH903927.1|EH903927
EST:     AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAG                         AAGTGACAGATTCTGTAATCATCG
genomic: AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAGgttttgagat ... ctacttgaagA-GTGACAGATTCTGTAATCATCG
EST: gi|86019778|gb|DR315524.1|DR315524
EST:     AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAG                         AGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGGAACTCGTA
genomic: AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAGgttttgagat ... ctacttgaagAGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGG-AACTCGTA
EST: gi|125086601|gb|EL146024.1|EL146024
EST:     AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAG                         AGTGACAGATTCTGTAATC
genomic: AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAGgttttgagat ... ctacttgaagAGTGACAGATTCTGTAATC
EST: gi|125249583|gb|EL263668.1|EL263668
EST:     AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAG                         AGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGAACT
genomic: AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAGgttttgagat ... ctacttgaagAGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGAACT
EST: gi|86019776|gb|DR315522.1|DR315522
EST:     AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAG                         AGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGAACTCGTAAA
genomic: AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAGgttttgagat ... ctacttgaagAGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGAACTCGTAAA
EST: gi|86019779|gb|DR315525.1|DR315525
EST:     AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAG                         AGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGAACTCGTAAA
genomic: AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAGgttttgagat ... ctacttgaagAGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGAACTCGTAAA
EST: gi|86019777|gb|DR315523.1|DR315523
EST:     AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAG                         AGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGAACTCGTAAA
genomic: AGACATCAATCCATTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAGgttttgagat ... ctacttgaagAGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGAACTCGTAAA
EST: gi|125065831|gb|EL132919.1|EL132919
EST:     TTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAG                         AGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGAACTCGTAAA
genomic: TTCTCCTAATTTCATCAGAATTGGGACAAATTCTCAGgttttgagat ... ctacttgaagAGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGAACTCGTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctagcatcaacaagtataaagttcctaactttaactttttacgctacttgaagAGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGAACTCGTAAAGTGAAAGGAGCATCTGTACGTATGGCATTAGTTGAGGAGAGACAATCAA
                           taactttaacttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttgagattttccttctctctgtttcaatctctctagcatcaacaagtataaagttcctaactttaactttttacgctacttgaagAGTGACAGATTCTGTAATCATCGTTTGGAATTGGTACATGGAACTCGTAAAGTGAAAGGAGCATCTGTACGTATGGCATTAGTTGAGGAGAGACAATCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA