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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttcgatattagaaatgggtcttaatgcatcaacttgcaactacttttttattcagagtcaacagttcactttttttaatagtatcaatttatttgtagGTGGAGAACATTTTGGTGATAGGCCATAGCTGCTGTGGTGGTATTAAGGGACTCATGTCCATTGAAGATGATGCTGCCCCAACTCAAAG

Basic information

species Arabidopsis thaliana
transcript AT1G70410.1
intron # 5
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|125029490|gb|EL101759.1|EL101759
EST:     CAGTTGTACATCTCAAG                         GTGGAGAACATTTTGGTGATAGGCCATAGCTGCTGTGGTGGTATTAAGGGA
genomic: CAGTTGTACATCTCAAGgtacatgaac ... ttatttgtagGTGGAGAACATTTTGGTGATAGGCCATAGCTGCTGTGGTGGTATTAAGGGA
EST: gi|124723103|gb|EH814505.1|EH814505
EST:     CGCCGCCGTTGAATACGCAGTTGTACATCTCAAG                         GTGGAGAACATTTTGGTGATAGGCCATAGCTGCTGTGGTGGTATTAAGGGA
genomic: CGCCGCCGTTGAATACGCAGTTGTACATCTCAAGgtacatgaac ... ttatttgtagGTGGAGAACATTTTGGTGATAGGCCATAGCTGCTGTGGTGGTATTAAGGGA
EST: gi|125240162|gb|EL254247.1|EL254247
EST:     GTTGAATACGCAGTTGTACATCTCAAG                         GTGGAGAGCATTTTGGTGATAGGCCATAGCTGCTGTGGTGGTATTAAGGGA
genomic: GTTGAATACGCAGTTGTACATCTCAAGgtacatgaac ... ttatttgtagGTGGAGAACATTTTGGTGATAGGCCATAGCTGCTGTGGTGGTATTAAGGGA
EST: gi|86078926|gb|DR374683.1|DR374683
EST:     ACGCAGTTGTACATCTCAAG                         GTGGAGAACATTTTGGTGATAGGCCATAGCTGCTGTGGTGGTATTAAGGGA
genomic: ACGCAGTTGTACATCTCAAGgtacatgaac ... ttatttgtagGTGGAGAACATTTTGGTGATAGGCCATAGCTGCTGTGGTGGTATTAAGGGA
EST: gi|125211024|gb|EL225978.1|EL225978
EST:     CGCCGCCGTTGAATACGCAGTTGTACATCTCAAG                         GTGGAGAACATTTTGGTGATAGGCCATAGCTGCTGTGGTGGTATTAAGGGA
genomic: CGCCGCCGTTGAATACGCAGTTGTACATCTCAAGgtacatgaac ... ttatttgtagGTGGAGAACATTTTGGTGATAGGCCATAGCTGCTGTGGTGGTATTAAGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttattcagagtcaacagttcactttttttaatagtatcaatttatttgtagGTGGAGAACATTTTGGTGATAGGCCATAGCTGCTGTGGTGGTATTAAGGGACTCATGTCCATTGAAGATGATGCTGCCCCAACTCAAAG
                             ttttaat  putative branch site (score: 3)
 tttattt  putative PPT
 ttcactttttttaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgttcgatattagaaatgggtcttaatgcatcaacttgcaactacttttttattcagagtcaacagttcactttttttaatagtatcaatttatttgtagGTGGAGAACATTTTGGTGATAGGCCATAGCTGCTGTGGTGGTATTAAGGGACTCATGTCCATTGAAGATGATGCTGCCCCAACTCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC