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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgttagtttcattttcagcaatatgtttgtatttggtgtatgcaagtagtgggatattgtcatgaatctcttgtctcatgtttgagtttttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACATTGTGACGGATCCGTTTCAACTTCCTGCTGATTTCCTAAACCCTTCTCC

Basic information

species Arabidopsis thaliana
transcript AT2G25910.1
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|86035177|gb|DR330930.1|DR330930
EST:     GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAG                         GAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
genomic: GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAGgtcccttctt ... ttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
EST: gi|86035184|gb|DR330937.1|DR330937
EST:     GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAG                         GAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
genomic: GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAGgtcccttctt ... ttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
EST: gi|86035180|gb|DR330933.1|DR330933
EST:     GTCGTCTTCTCCAACTCAGCTAGCTCDCGTCCCGATTCCTCCAGAACCAG                         GAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
genomic: GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAGgtcccttctt ... ttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
EST: gi|86035183|gb|DR330936.1|DR330936
EST:     GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAG                         G-GGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
genomic: GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAGgtcccttctt ... ttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
EST: gi|86035178|gb|DR330931.1|DR330931
EST:     GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAG                         GAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
genomic: GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAGgtcccttctt ... ttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
EST: gi|86035173|gb|DR330926.1|DR330926
EST:     GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAG                         GAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
genomic: GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAGgtcccttctt ... ttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
EST: gi|164237844|gb|ES023778.1|ES023778
EST:     GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAG                         GAGGAAGGTCGCCGAC
genomic: GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAGgtcccttctt ... ttcgcttcagGAGGAAGGTCGCCGAC
EST: gi|86035181|gb|DR330934.1|DR330934
EST:     GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAG                         GAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
genomic: GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAGgtcccttctt ... ttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
EST: gi|86035176|gb|DR330929.1|DR330929
EST:     GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAG                         GAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
genomic: GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAGgtcccttctt ... ttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
EST: gi|86035186|gb|DR330939.1|DR330939
EST:     GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAG                         GAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
genomic: GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAGgtcccttctt ... ttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
EST: gi|86035185|gb|DR330938.1|DR330938
EST:     GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAG                         GAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
genomic: GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAGgtcccttctt ... ttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
EST: gi|86035174|gb|DR330927.1|DR330927
EST:     GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAG                         GAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
genomic: GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAGgtcccttctt ... ttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
EST: gi|86035182|gb|DR330935.1|DR330935
EST:     GTCGTCTTCTCCAACTCAGCTAGCTCWCGTCCCGATTCCTCCAGAACCAG                         GAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA
genomic: GTCGTCTTCTCCAACTCAGCTAGCTCACGTCCCGATTCCTCCAGAACCAGgtcccttctt ... ttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtagtgggatattgtcatgaatctcttgtctcatgtttgagtttttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACATTGTGACGGATCCGTTTCAACTTCCTGCTGATTTCCTAAACCCTTCTCC
                                          tttttcgcttc  CT-rich tract
         atattgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgttagtttcattttcagcaatatgtttgtatttggtgtatgcaagtagtgggatattgtcatgaatctcttgtctcatgtttgagtttttcgcttcagGAGGAAGGTCGCCGACACAAGAAGCTAATGAGCCACCAGTTCCGATTTACATTGTGACGGATCCGTTTCAACTTCCTGCTGATTTCCTAAACCCTTCTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT