Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacgaatctcattgtcgattcttcacctccatgtttacatttagttaaatgatgtgtctcacattgcag

Basic information

species Arabidopsis thaliana
transcript AT5G62240.1
intron # 8
splice site 5'
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|116430545|gb|EG473137.1|EG473137
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430547|gb|EG473139.1|EG473139
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTGAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430546|gb|EG473138.1|EG473138
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTGAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430548|gb|EG473140.1|EG473140
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430549|gb|EG473141.1|EG473141
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430536|gb|EG473128.1|EG473128
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430559|gb|EG473151.1|EG473151
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430537|gb|EG473129.1|EG473129
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430560|gb|EG473152.1|EG473152
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430541|gb|EG473133.1|EG473133
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430542|gb|EG473134.1|EG473134
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGCACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430555|gb|EG473147.1|EG473147
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430540|gb|EG473132.1|EG473132
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430552|gb|EG473144.1|EG473144
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCAAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430551|gb|EG473143.1|EG473143
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCAAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430556|gb|EG473148.1|EG473148
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430558|gb|EG473150.1|EG473150
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430544|gb|EG473136.1|EG473136
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430554|gb|EG473146.1|EG473146
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
EST: gi|116430538|gb|EG473130.1|EG473130
EST:     GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAAT                         GCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC
genomic: GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacg ... cacattgcagGCTAAAACCGATGTCGTACAAGAGAATGATGCTACTAAGTCCAGAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCATTTCGTTTAAGGACATCACTGAGAGCGAAGGAACGCTCTTCAAATgtaagtcacgaatctcattgtcgattcttcacctccatgtttacatttagttaaatgatgtgtctcacattgcag

- - - - - - - - - - - - - - - AAGGAA