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'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgctttatctataggtgtttttccagatattgttaatgggattttcttcaatgctaatgtttactatatttgttattaattgtctggcttatcaaatatccaatattctatacagCCAAAGGATGCTGTTGAGATTTCTCTGAAGGATATTGACCAACTGGCTAAAACTTCTTTCCCTCTTTGTATGCGCCACATGCTAGAGAAG

Basic information

species Oryza sativa
transcript LOC_Os07g22400.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g22400.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G044317_T03 (Zea mays), 3'ss of exon 11
gtatgttgctttatctataggtgtttttccagatattgttaatgggattttcttcaatgctaatgtttactatatttgttattaattgtctggcttatcaaatatccaatattctatacagCCAAAGGATGCTGTTGAGATTTCTCTGAAGGATATTGACCAACTGGCTAAAACTTCTTTCCCTCTTTGTATGCGCCACATGCTAGAGAAG
||||| ||  | | || |       | | ||| |||| ||     ||||||| | |    |||  | |  | |   |     |  ||| | |    ||    |  |   | ||  | ||||||||||||||||||||| || ||||| ||||||||||||||||||||||||| ||||||||||||||||||||| || |||||||| |||
gtatgctgtgtcacctct---cacctatgcagttattctt-----gattttcctgagatttaac-tatgttttccctagcgctg-ttgccagctgaattgcttcacttgt-tttcacacagCCAAAGGATGCTGTTGACATATCTCTAAAGGATATTGACCAACTGGCTAAAAGTTCTTTCCCTCTTTGTATGCGGCATATGCTAGATAAG

upper sequence: LOC_Os07g22400.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G130351_T01 (Zea mays), 3'ss of exon 11
gtatgttgctttatctataggtgtttttccagatattgttaatgggattttcttcaatgctaatgtttactatatttgttattaattgtctggcttatcaaatatccaatattctatacagCCAAAGGATGCTGTTGAGATTTCTCTGAAGGATATTGACCAACTGGCTAAAACTTCTTTCCCTCTTTGTATGCGCCACATGCTAGAGAAG
                 || |   |   | |   | |  |  |    ||||||   ||   | | | |  |    | ||  |   ||| | |    ||    |  |   | ||  | ||||||||||||||| ||||| || ||||| ||||||||||||||||||||||||| ||||||||||||||||||||| || ||||| || |||
----------------gtatgctctcacctatgcagttatgcttaacttttctgagatttaactatgttttcctctagtgct--gttgccagctgaattgcttgacttgtttttcacacagCCAAAGGATGCCGTTGACATATCTCTAAAGGATATTGACCAACTGGCTAAAAGTTCTTTCCCTCTTTGTATGCGGCATATGCTTGATAAG
















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|3766960|gb|AU031070.1|AU031070
EST:     ATTGTCGAAGCATTGAGTAATGCATATTTTGGACCTGATTACTCTCAG                         CCAAAGGATGCTGTTGAGATTTCTCTGAAGGATATTGACCAACTGGCTAAA
genomic: ATTGTCGAAGCATTGAGTAATGCATATTTTGGACCTGATTACTCTCAGgtatgttgct ... ttctatacagCCAAAGGATGCTGTTGAGATTTCTCTGAAGGATATTGACCAACTGGCTAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactatatttgttattaattgtctggcttatcaaatatccaatattctatacagCCAAAGGATGCTGTTGAGATTTCTCTGAAGGATATTGACCAACTGGCTAAAACTTCTTTCCCTCTTTGTATGCGCCACATGCTAGAGAAG
             tattaat  putative branch site (score: 2)
     atatttgttattaatt  TA-rich tract