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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaacacaaaagactcttcaaatttgaaaaagccctactaccataatttgattttggaggtcaaaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAGATGTATTTGACTGAGAAAAAAGAAAGAGCTGAAGCTCATGCGTCAGAGG

Basic information

species Arabidopsis thaliana
transcript AT2G03620.1
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|116400882|gb|EG443474.1|EG443474
EST:     TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
EST: gi|116398147|gb|EG440739.1|EG440739
EST:     TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
EST: gi|116398342|gb|EG440934.1|EG440934
EST:     TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
EST: gi|116398341|gb|EG440933.1|EG440933
EST:     TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
EST: gi|116398297|gb|EG440889.1|EG440889
EST:     TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
EST: gi|116398331|gb|EG440923.1|EG440923
EST:     TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
EST: gi|116400885|gb|EG443477.1|EG443477
EST:     TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
EST: gi|116398334|gb|EG440926.1|EG440926
EST:     CGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: CGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
EST: gi|116398523|gb|EG441115.1|EG441115
EST:     TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
EST: gi|116400881|gb|EG443473.1|EG443473
EST:     TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
EST: gi|116400870|gb|EG443462.1|EG443462
EST:     GCGCAGGCTAAAAAGTCGTCTTCTTACCCTTA-CACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGA
genomic: GCGCAGGCTAAAAGGTCGTCTTCTTACC-TTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGA
EST: gi|116398300|gb|EG440892.1|EG440892
EST:     GCGCCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: GCG-CAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
EST: gi|116398332|gb|EG440924.1|EG440924
EST:     TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
EST: gi|116400869|gb|EG443461.1|EG443461
EST:     TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
EST: gi|116400874|gb|EG443466.1|EG443466
EST:     TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAG                         GTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG
genomic: TGCGCAGGCTAAAAGGTCGTCTTCTTACCTTAACACAGAAAGTTCAGAAGgtgaacacaa ... aaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaatttgaaaaagccctactaccataatttgattttggaggtcaaaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAGATGTATTTGACTGAGAAAAAAGAAAGAGCTGAAGCTCATGCGTCAGAGG
                           atttgat  putative branch site (score: 5)
                        ataatttgatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaacacaaaagactcttcaaatttgaaaaagccctactaccataatttgattttggaggtcaaaacttgcagGTTTGTGATGAAATAGAGCATTTAATGGATGATGATGATGACATGGCTGAGATGTATTTGACTGAGAAAAAAGAAAGAGCTGAAGCTCATGCGTCAGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA