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

gtctctgctgcaaaacacacatttgattactcctcgacattcatatttcgagattcattactcactctgcgtctctttcttaatcttgaaaagGTTTATATCGCTGGAGCAGCTGCACCGGAATCCAAATGGAAAGACGATGAGTTGAAGCTCCGATCTGCTGCCATTTCTTTCACTATTCTATAGTCAAAAG

Basic information

species Arabidopsis thaliana
transcript AT5G27390.1
intron # 6
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|19742366|gb|AU227719.1|AU227719
EST:     GTAGAGATGAAGAACGCATAGCTCTAGTAGCCTCTGTGAACAGAGGGAAG                         GTTTATATCGCTGGAGCAGCTGCACCGGAATCCAAATGGAAAGACGATGAG
genomic: GTAGAGATGAAGAACGCATAGCTCTAGTAGCCTCTGTGAACAGAGGGAAGgtctctgctg ... tcttgaaaagGTTTATATCGCTGGAGCAGCTGCACCGGAATCCAAATGGAAAGACGATGAG
EST: gi|86085615|gb|DR381374.1|DR381374
EST:     GTAGAGATGAAGAACGCATAGCTCTAGTAGCCTCTGTGAACAGAGGGAAG                         GTTTATATCGCTGGAGCAGCTGCACCGGAATCCAAATGGAAAGACGATGAG
genomic: GTAGAGATGAAGAACGCATAGCTCTAGTAGCCTCTGTGAACAGAGGGAAGgtctctgctg ... tcttgaaaagGTTTATATCGCTGGAGCAGCTGCACCGGAATCCAAATGGAAAGACGATGAG
EST: gi|19799686|gb|AU230976.1|AU230976
EST:     GTAGAGATGAAGAACGCATAGCTCTATTAGCCTCTTTGAACAGAGGGAAGG                         GTTTATATCGCTGGAGCAGCTCCACCGGAATCCAAATGGAAAGACGATGA
genomic: GTAGAGATGAAGAACGCATAGCTCTAGTAGCCTCTGTGAACAGAGGGAA-Ggtctctgctg ... tcttgaaaagGTTTATATCGCTGGAGCAGCTGCACCGGAATCCAAATGGAAAGACGATGA
EST: gi|164192451|gb|ES030431.1|ES030431
EST:     GTAGAGATGAAGAACGCATAGCTCTAGTAGCCTCTGTGAACAGAGGGAAG                         GTTTATATCGCTGGAGCAGC
genomic: GTAGAGATGAAGAACGCATAGCTCTAGTAGCCTCTGTGAACAGAGGGAAGgtctctgctg ... tcttgaaaagGTTTATATCGCTGGAGCAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcatatttcgagattcattactcactctgcgtctctttcttaatcttgaaaagGTTTATATCGCTGGAGCAGCTGCACCGGAATCCAAATGGAAAGACGATGAGTTGAAGCTCCGATCTGCTGCCATTTCTTTCACTATTCTATAGTCAAAAG
                                 tctctttcttaatctt  CT-rich tract
                                     tttcttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctctgctgcaaaacacacatttgattactcctcgacattcatatttcgagattcattactcactctgcgtctctttcttaatcttgaaaagGTTTATATCGCTGGAGCAGCTGCACCGGAATCCAAATGGAAAGACGATGAGTTGAAGCTCCGATCTGCTGCCATTTCTTTCACTATTCTATAGTCAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC