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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatccatttactgttatactagtagaattgtaactttttcgttctaacattctttttgttgcagATAACAAACCAGTCGAAGTTCTCCCATCCAGCGAGCCACCAAGAGGCTTACTGTCACTACTTCAAGGTGCAGATAAATTGCAAACATTTGACACAAAAGC

Basic information

species Arabidopsis thaliana
transcript AT4G01290.1
intron # 8
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|164000904|gb|ES065583.1|ES065583
EST:     GTTCGCTCATCTATTTCTTGAAGAAG                         ATAACAAACCAGTCGAAGTTCTCCCATCCAGCGAGCCACCAAGAGGCTTAC
genomic: GTTCGCTCATCTATTTCTTGAAGAAGgtaatccatt ... tttgttgcagATAACAAACCAGTCGAAGTTCTCCCATCCAGCGAGCCACCAAGAGGCTTAC
EST: gi|86064672|gb|DR360429.1|DR360429
EST:     GACCATTAATAAAATCCTCCAAGTTCGCTCCATCTATTTTCTTGAAGAAG                         ATAACAAAACCCAGTCGAAG
genomic: GACCATTAATAAA-TCCTCCAAGTTCGCTC-ATCTATTT-CTTGAAGAAGgtaatccatt ... tttgttgcagATAACAAA-CC-AGTCGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgttatactagtagaattgtaactttttcgttctaacattctttttgttgcagATAACAAACCAGTCGAAGTTCTCCCATCCAGCGAGCCACCAAGAGGCTTACTGTCACTACTTCAAGGTGCAGATAAATTGCAAACATTTGACACAAAAGC
                                ttctaac  putative branch site (score: 1)
                                        ttctttttgtt  CT-rich tract
                aattgtaacttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatccatttactgttatactagtagaattgtaactttttcgttctaacattctttttgttgcagATAACAAACCAGTCGAAGTTCTCCCATCCAGCGAGCCACCAAGAGGCTTACTGTCACTACTTCAAGGTGCAGATAAATTGCAAACATTTGACACAAAAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT