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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtctcacaacacagtacttataatgaaacaactccattaaacactgtttcaggactttaattatatgtgctttggttgatgtgtgtggttgcagCACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCAACAGCCAGCTGGAGGTGGTGAAGCTGCTTGAGAAGGATGCTTTCCTTTGA

Basic information

species Arabidopsis thaliana
transcript AT4G35450.2
intron # 7
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|124861311|gb|EH945748.1|EH945748
EST:     TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGT                         CACTCTGCAAAACCTAGACGAGAAGACG
genomic: TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGTgtaagtctca ... gtggttgcagCACTCTGCAAAACCTAGACGAGAAGACG
EST: gi|124726803|gb|EH818205.1|EH818205
EST:     TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGT                         CACTCTGCAAAA
genomic: TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGTgtaagtctca ... gtggttgcagCACTCTGCAAAA
EST: gi|86084823|gb|DR380582.1|DR380582
EST:     TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGT                         CACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCAA
genomic: TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGTgtaagtctca ... gtggttgcagCACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCAA
EST: gi|86079360|gb|DR375117.1|DR375117
EST:     TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGT                         CACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCAA
genomic: TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGTgtaagtctca ... gtggttgcagCACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCAA
EST: gi|124753751|gb|EH843881.1|EH843881
EST:     TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGT                         CACTCTGCAAAACCTAGACGAGAAGAC
genomic: TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGTgtaagtctca ... gtggttgcagCACTCTGCAAAACCTAGACGAGAAGAC
EST: gi|125019352|gb|EL091621.1|EL091621
EST:     TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGT                         CACTCTGCAAAACCTAGACGA
genomic: TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGTgtaagtctca ... gtggttgcagCACTCTGCAAAACCTAGACGA
EST: gi|125313311|gb|EL327396.1|EL327396
EST:     TACGGGAGGAAAGAGTGTGTAAG-CTTCTCCTGGAGAATGGTGCTGCAGT                         CACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCT
genomic: TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGTgtaagtctca ... gtggttgcagCACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCT
EST: gi|124923976|gb|EL002114.1|EL002114
EST:     TGGAGAATGGTGCTGCAGT                         CACTTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCA
genomic: TGGAGAATGGTGCTGCAGTgtaagtctca ... gtggttgcagCAC-TCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCA
EST: gi|86079639|gb|DR375396.1|DR375396
EST:     TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGT                         CACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCAA
genomic: TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGTgtaagtctca ... gtggttgcagCACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCAA
EST: gi|124779392|gb|EH869335.1|EH869335
EST:     TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGT                         CACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAG
genomic: TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGTgtaagtctca ... gtggttgcagCACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAG
EST: gi|125220856|gb|EL234941.1|EL234941
EST:     TGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGT                         CACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCAA
genomic: TGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGTgtaagtctca ... gtggttgcagCACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCAA
EST: gi|86081367|gb|DR377124.1|DR377124
EST:     TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGT                         CACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCAA
genomic: TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGTgtaagtctca ... gtggttgcagCACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCAA
EST: gi|124759358|gb|EH849488.1|EH849488
EST:     TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGT                         CACTCTGCAAAAC
genomic: TACGGGAGGAAAGAGTGTGTAAGCCTTCTCCTGGAGAATGGTGCTGCAGTgtaagtctca ... gtggttgcagCACTCTGCAAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacactgtttcaggactttaattatatgtgctttggttgatgtgtgtggttgcagCACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCAACAGCCAGCTGGAGGTGGTGAAGCTGCTTGAGAAGGATGCTTTCCTTTGA
              actttaattatatgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtctcacaacacagtacttataatgaaacaactccattaaacactgtttcaggactttaattatatgtgctttggttgatgtgtgtggttgcagCACTCTGCAAAACCTAGACGAGAAGACGCCAATTGATGTAGCGAAGCTCAACAGCCAGCTGGAGGTGGTGAAGCTGCTTGAGAAGGATGCTTTCCTTTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG