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'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGTTACAGAGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaattgactgttcttgtcctttcctgttcagtttaatgtaaaaataactctatctttgcgctcgctggaaaatcttataccattctcagggtctt...

Basic information

species Arabidopsis thaliana
transcript AT3G06670.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G06670.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv05s0077g01200.t01 (Vitis vinifera), 5'ss of exon 7
ATTGTTACAGAGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagt---aattgactgttcttgtcctttcctgttcag---tttaatgt-aaaaataactctatctttgcgctcgctggaaaatcttataccattctcagggtctt------------------------------------------------------------
|| ||    |||||||||||| | || ||||| ||||| |||||||||||||| || ||||| |||    || || |       |     |   | ||    |||  | |  ||||||||  ||   |        |   ||  |||| |    || |||  ||                                                               
ATAGTGTTGGAGAGTGGCATTGCTGAGCAGATACGCCTGACTGAACTTATTTTAAACGATgtaagtttggatagatttcatgcatatgggcagatgcaaatatttggtcttgaaaataacaataaaataatcacatcc--aacctcttctgttcttgtcattgtgacgttttagccctttagtatcattgtgtctttttaatgataaaataattcatttttatgcag
















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|116447731|gb|EG490323.1|EG490323
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116411545|gb|EG454137.1|EG454137
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTG
EST: gi|116407356|gb|EG449948.1|EG449948
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116413313|gb|EG455905.1|EG455905
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGA-TCTGATGGGTGTTTTTAAA-TATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116444990|gb|EG487582.1|EG487582
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAA
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAA
EST: gi|116449085|gb|EG491677.1|EG491677
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CTTGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGA
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGA
EST: gi|116449109|gb|EG491701.1|EG491701
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116407371|gb|EG449963.1|EG449963
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116448708|gb|EG491300.1|EG491300
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116449103|gb|EG491695.1|EG491695
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116434816|gb|EG477408.1|EG477408
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTT
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTT
EST: gi|116379504|gb|EG422096.1|EG422096
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTGTTACAGAGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaattgactgttcttgtcctttcctgttcagtttaatgtaaaaataactctatctttgcgctcgctggaaaatcttataccattctcagggtctt

- - - - - - - - - - -  AGATCA
- - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG