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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaccatttcttcctttaaatgataagaactagcagcaactgtaaagtatcaagtggaaagtaaccattgcatctctaaatcgataagtatccacatatacttcttataacaaatctatgtaatatgtatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAAGAAGAGAGAAGCTGGTGGACACGACTGCTGAAATCGGAAGAGAAACCTG

Basic information

species Arabidopsis thaliana
transcript AT3G03773.1
intron # 2
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|116378930|gb|EG421522.1|EG421522
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAAAAA
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
EST: gi|116376158|gb|EG418750.1|EG418750
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAA
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAA
EST: gi|116378931|gb|EG421523.1|EG421523
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
EST: gi|116378929|gb|EG421521.1|EG421521
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
EST: gi|116376153|gb|EG418745.1|EG418745
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
EST: gi|116376154|gb|EG418746.1|EG418746
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGA
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGA
EST: gi|116376157|gb|EG418749.1|EG418749
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
EST: gi|116376168|gb|EG418760.1|EG418760
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAACATCA
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCA
EST: gi|116376159|gb|EG418751.1|EG418751
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
EST: gi|164158290|gb|ES038447.1|ES038447
EST:     CGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
genomic: CGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
EST: gi|116376167|gb|EG418759.1|EG418759
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
EST: gi|116378927|gb|EG421519.1|EG421519
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
EST: gi|164155244|gb|ES105580.1|ES105580
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAG
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAG
EST: gi|116378926|gb|EG421518.1|EG421518
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
EST: gi|164194570|gb|ES171659.1|ES171659
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATTCGGAAGAATGTAGGACTAAG
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATAT-CGGAAGAATGTAGGACTAAG
EST: gi|116376170|gb|EG418762.1|EG418762
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAAC
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAAC
EST: gi|116376169|gb|EG418761.1|EG418761
EST:     AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACA                         GAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA
genomic: AAGGCGAGCGCTTTGAATTCAGCTTGGAGTTATATGGGAAGATTATGACAgtaagtacca ... tatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataagtatccacatatacttcttataacaaatctatgtaatatgtatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAAGAAGAGAGAAGCTGGTGGACACGACTGCTGAAATCGGAAGAGAAACCTG
                      ttataac  putative branch site (score: 2)
                      ttataacaaatctatg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtaccatttcttcctttaaatgataagaactagcagcaactgtaaagtatcaagtggaaagtaaccattgcatctctaaatcgataagtatccacatatacttcttataacaaatctatgtaatatgtatgatgcagGAATATCGGAAGAATGTAGGACTAAGGAACATCATATTTTCAATTCAGAAAGAAGAGAGAAGCTGGTGGACACGACTGCTGAAATCGGAAGAGAAACCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA