Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAACTGTTCCTCTCGATGGCGATGATTCAATGACCGAAGAAGTGTTAGATCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTGgtaagagaagtttcagatccctatgtgaaaaggactctggtataaaataactaactcacttttcatttgttttggattttcag

Basic information

species Arabidopsis thaliana
transcript AT5G22510.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G22510.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv06s0061g01520.t01 (Vitis vinifera), 5'ss of exon 4
AAAACTGTTCCTCTCGATGGCGATGATTCAATGACCGAAGAAGTGTTAGATCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTGgtaagagaagtttc---------agatccctatgtgaaaaggactctggtata-aaataacta-actcacttttcatttgttttggattttcag------
   |||||||| || ||||| ||||||||    || ||||| || || |||||||| |||||||| ||||| ||||| |||||||| || |||||||||||||||   |  |||         || | |  ||   |  | |  |    | ||  | ||  || | | |  ||    |  |||| | |  | ||      
CGCACTGTTCCACTTGATGGTGATGATTCTGCAACTGAAGATGTATTGGATCCTGACTTTGGTGAGGCAGCAATTGGCCGTGTTGCACCCGTTGATTCTGgtaagcagatattctgttcaataagcttctcattaaagtatggtttacttttatgagtatttacatttaaattcttctcattttagttgctgagaaacca
















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|116428552|gb|EG471144.1|EG471144
EST:     TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTG                         GCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
genomic: TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTGgtaagagaag ... ggattttcagGCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
EST: gi|116428540|gb|EG471132.1|EG471132
EST:     TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTG                         GCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
genomic: TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTGgtaagagaag ... ggattttcagGCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
EST: gi|125051423|gb|EL123692.1|EL123692
EST:     CCCGGTTGATTCTG                         GCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
genomic: CCCGGTTGATTCTGgtaagagaag ... ggattttcagGCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
EST: gi|163997107|gb|ES171767.1|ES171767
EST:     TATTGGACGTGTTGCCCCGGTTGATTCTG                         GCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
genomic: TATTGGACGTGTTGCCCCGGTTGATTCTGgtaagagaag ... ggattttcagGCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
EST: gi|116428487|gb|EG471079.1|EG471079
EST:     TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTG                         GCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
genomic: TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTGgtaagagaag ... ggattttcagGCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
EST: gi|116428537|gb|EG471129.1|EG471129
EST:     TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTG                         GCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
genomic: TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTGgtaagagaag ... ggattttcagGCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
EST: gi|116428488|gb|EG471080.1|EG471080
EST:     TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTG                         GCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
genomic: TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTGgtaagagaag ... ggattttcagGCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
EST: gi|124791350|gb|EH881029.1|EH881029
EST:     TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTG                         GCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACT
genomic: TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTGgtaagagaag ... ggattttcagGCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACT
EST: gi|116428380|gb|EG470972.1|EG470972
EST:     TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTG                         GCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
genomic: TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTGgtaagagaag ... ggattttcagGCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
EST: gi|116428546|gb|EG471138.1|EG471138
EST:     TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTG                         GCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC
genomic: TCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTGgtaagagaag ... ggattttcagGCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAACTGTTCCTCTCGATGGCGATGATTCAATGACCGAAGAAGTGTTAGATCCTGATTTTGGTGAAGCAGCTATTGGACGTGTTGCCCCGGTTGATTCTGgtaagagaagtttcagatccctatgtgaaaaggactctggtataaaataactaactcacttttcatttgttttggattttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT