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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtaaaactcagtttagcataaggatttagatatgttcactatcacacactaaggattctatgttcctttttgcagCGTGGTATGAGCGAAGACAGATGAAGAAAATCTACTCTCCTCTTCTTGAAGGGCTTTTGGGTCTATACCTCGGCTTTGAATGGATTCAG

Basic information

species Arabidopsis thaliana
transcript AT4G17840.1
intron # 7
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|125022828|gb|EL095097.1|EL095097
EST:     GGTCTTGAAAACTCGCTCTGCCCGAGACGAGCTGAAGAAGTTGTTTGCAG                         CGTGGTATGAGCG
genomic: GGTCTTGAAAACTCGCTCTGCCCGAGACGAGCTGAAGAAGTTGTTTGCAGgttcgtaaaa ... ctttttgcagCGTGGTATGAGCG
EST: gi|125058939|gb|EL127616.1|EL127616
EST:     GGTCTTGAAAACTCGCTCTGCCCGAGACGAGCTGAAGAAGTTGTTTGCAG                         CGTGGTATGAGCGAAGACAGATGAA
genomic: GGTCTTGAAAACTCGCTCTGCCCGAGACGAGCTGAAGAAGTTGTTTGCAGgttcgtaaaa ... ctttttgcagCGTGGTATGAGCGAAGACAGATGAA
EST: gi|86080454|gb|DR376211.1|DR376211
EST:     GGTCTTGAAAACTCGCTCTGCCCGAGACGAGCTGAAGAAGTTGTTTGCAG                         CGTGGTATGAGCGAAGACAGATGAAGAAAATCTACTCTCCTCTTCTTGAAG
genomic: GGTCTTGAAAACTCGCTCTGCCCGAGACGAGCTGAAGAAGTTGTTTGCAGgttcgtaaaa ... ctttttgcagCGTGGTATGAGCGAAGACAGATGAAGAAAATCTACTCTCCTCTTCTTGAAG
EST: gi|116444842|gb|EG487434.1|EG487434
EST:     GGTCTTGAAAACTCGCTCTGCCCGAGACGAGCTGAAGAAGTTGTTTGCAG                         CGTGGTATGAGCGAAGACAGATGAAGAAAATCTACTCTCCTCTTCTTGAAG
genomic: GGTCTTGAAAACTCGCTCTGCCCGAGACGAGCTGAAGAAGTTGTTTGCAGgttcgtaaaa ... ctttttgcagCGTGGTATGAGCGAAGACAGATGAAGAAAATCTACTCTCCTCTTCTTGAAG
EST: gi|19799440|gb|AU230730.1|AU230730
EST:     GCTGAAGAAGTTGTTTCCAG                         CGTGGTATGAGCGAAGACAGATGAAGAAAATCTACTCTCCTCTTCTTGAAG
genomic: GCTGAAGAAGTTGTTTGCAGgttcgtaaaa ... ctttttgcagCGTGGTATGAGCGAAGACAGATGAAGAAAATCTACTCTCCTCTTCTTGAAG
EST: gi|116444840|gb|EG487432.1|EG487432
EST:     GGTCTTGAAAACTCGCTCTGCCCGAGACGAGCTGAAGAAGTTGTTTGCAG                         CGTGGTATGAGCGAAGACAGATGAAGAAAATCTACTCTCCTCTTCTTGAAG
genomic: GGTCTTGAAAACTCGCTCTGCCCGAGACGAGCTGAAGAAGTTGTTTGCAGgttcgtaaaa ... ctttttgcagCGTGGTATGAGCGAAGACAGATGAAGAAAATCTACTCTCCTCTTCTTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggatttagatatgttcactatcacacactaaggattctatgttcctttttgcagCGTGGTATGAGCGAAGACAGATGAAGAAAATCTACTCTCCTCTTCTTGAAGGGCTTTTGGGTCTATACCTCGGCTTTGAATGGATTCAG
                                   ttctatgttccttttt  CT-rich tract
     ttagatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcgtaaaactcagtttagcataaggatttagatatgttcactatcacacactaaggattctatgttcctttttgcagCGTGGTATGAGCGAAGACAGATGAAGAAAATCTACTCTCCTCTTCTTGAAGGGCTTTTGGGTCTATACCTCGGCTTTGAATGGATTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG