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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagtcaatgtcgagtccaaattgacagtttgttcaattagttcattcattcatagaatcataagggttactttttcctaacttaattacctctaatgcagTATGATGAGACTGAAGCAAGGAGGGAAAGAGCCAAAAATTCACTTGAGAGATACATGCATTACTATGAGCGCTGGGCATCTAATCAGACG

Basic information

species Oryza sativa
transcript LOC_Os08g42740.3
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g42740.5 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G100913_T02 (Zea mays), 3'ss of exon 9
-aagtcaatgtcgagtccaaattgacagtttgttcaattagttcattcattcatagaatcataagggttactttttcctaacttaattacctctaatgcagTATGATGAGACTGAAGCAAGGAGGGAAAGAGCCAAAAATTCACTTGAGAGATACATGCATTACTATGAGCGCTGGGCATCTAATCAGACG
  ||   || |   |       |||   | |||     |  |   ||| ||   |    ||     |||   |  ||  |  | |||| | |||  ||||||| || |||||||| ||||||||||||||||| ||||| || ||||||||||| |||||||||||||||||||||||||| |||||||| 
gcagctcatctttgggatgttgtgattttctgtgtggatgctatgttc-ttttcatttccaaggatgttttctcctcaaacttaaattgcttctgttgcagTACGACGAGACTGATGCAAGGAGGGAAAGAGCTAAAAACTCTCTTGAGAGATATATGCATTACTATGAGCGCTGGGCATCCAATCAGACA
















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|29643283|gb|CB648290.1|CB648290
EST:     GTGGATTTTACGCTTGTAATCGCTATGAATCAGCAAAGAAGGAGGGAGTT                         TATGATGAGACTGAAGCAAGGAGGGAAAGAGCCAAAAATTCACTTGAGAGA
genomic: GTGGATTTTACGCTTGTAATCGCTATGAATCAGCAAAGAAGGAGGGAGTTgtatgtttta ... tctaatgcagTATGATGAGACTGAAGCAAGGAGGGAAAGAGCCAAAAATTCACTTGAGAGA
EST: gi|29643281|gb|CB648288.1|CB648288
EST:     GTGGATTTTACGCTTGTAATCACTATGAATCAGCAAAGAAGGAGGGAGTT                         TATGATGAGACTGAAGCAAGGAGGGAAAGAGCCAAAAATTCACTTGAGAGA
genomic: GTGGATTTTACGCTTGTAATCGCTATGAATCAGCAAAGAAGGAGGGAGTTgtatgtttta ... tctaatgcagTATGATGAGACTGAAGCAAGGAGGGAAAGAGCCAAAAATTCACTTGAGAGA
EST: gi|29677672|gb|CB673947.1|CB673947
EST:     GTGGATTTTACGCTTGTAATCGCTATGAATCAGCAAAGAAGGAGGGAGTT                         TATGATGAGACTGAAGCAAGGAGGGAAAGAGCCAAAAATTCACTTGAGAGA
genomic: GTGGATTTTACGCTTGTAATCGCTATGAATCAGCAAAGAAGGAGGGAGTTgtatgtttta ... tctaatgcagTATGATGAGACTGAAGCAAGGAGGGAAAGAGCCAAAAATTCACTTGAGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattcatagaatcataagggttactttttcctaacttaattacctctaatgcagTATGATGAGACTGAAGCAAGGAGGGAAAGAGCCAAAAATTCACTTGAGAGATACATGCATTACTATGAGCGCTGGGCATCTAATCAGACG
                                        ttacctct  CT-rich tract
                                taacttaatta  TA-rich tract