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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTTCTCAGAAGAGGAGATACGGAACTTTATGGTGCAGATACTGCAAGGTCTTGCATATATGCATAACAACGGTTATTTCCATCGTGACCTGAAACCTGgtatacctttcgactatattctgttgaagttataggctgtctatataccctagaagttaattagccttctctctttcctctttag

Basic information

species Oryza sativa
transcript LOC_Os03g63020.4
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g63020.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G045241_T07 (Zea mays), 5'ss of exon 2
GCTTTCTCAGAAGAGGAGATACGGAACTTTATGGTGCAGATACTGCAAGGTCTTGCATATATGCATAACAACGGTTATTTCCATCGTGACCTGAAACCTGgta-tacctttcgactatattctgttgaagttataggctgtctatataccctagaagttaattagccttctctctttcctctttag--
|||||| | |||  ||| ||| ||||||||||||| |||||||||||||||||||||||||||||||| || || ||||| || |||||  | |||||||||| |   | | |   |||||   ||| | ||||    | ||| | |  |    ||  |||||||  || |  |||   | | |    
GCTTTCCCTGAAAGGGATATAAGGAACTTTATGGTCCAGATACTGCAAGGTCTTGCATATATGCATAATAATGGGTATTTTCACCGTGATTTAAAACCTGgtaatgtgtcttgttgatattacattggaattat--cttatctttctttctgtcaaaataattagtttttttccttctatttgtgcag

upper sequence: LOC_Os03g63020.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT4G13020.1 (Arabidopsis thaliana), 5'ss of exon 6
GCTTTCTCAGAAGAGGAGATACGGAACTTTATGGTGCAGATACTGCAAGGTCTTGCATATATGCATAACAACGGTTATTTCCATCGTGACCTGAAACCTGgtatacctttcgactatattctgttgaagttataggctgtctatataccctagaagt-taattagccttctctctttcctctttag--
 |||| || ||||  || ||| | |  ||||||   ||||| |||||||| || ||| | |||||||| ||||||||||||||||| |||||||||||||||||   ||   ||| | |  |||   | ||  |    || |     |  |  | || | || | |    | | ||   | | |    
CCTTTTTCTGAAGGAGAAATAAGAAGTTTTATGTCTCAGATGCTGCAAGGGCTCGCACACATGCATAAAAACGGTTATTTCCATCGAGACCTGAAACCTGgtatgttttggtactttgtattgtattaattg-aaatggttttcgctctttgaatgtcttataaacaagttttgttctgtttctgaag
















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|25798660|gb|CA754621.1|CA754621
EST:     TCTTGCATATATGCATAACAACGGTTATTTCCATCGTGACCTGAAACCTG                         AAAATCTGTTGGTGACAGATGGC
genomic: TCTTGCATATATGCATAACAACGGTTATTTCCATCGTGACCTGAAACCTGgtataccttt ... tcctctttagAAAATCTGTTGGTGACAGATGGC
EST: gi|58675001|gb|CK063688.1|CK063688
EST:     TCTTGCATATATGCATAACAACGGTTATTTCCATCGTGACCTGAAACCTG                         AAAATCTGTTGGTGACAGATGGCACTGTTAAAATTGCTGACTTTGGGTTGG
genomic: TCTTGCATATATGCATAACAACGGTTATTTCCATCGTGACCTGAAACCTGgtataccttt ... tcctctttagAAAATCTGTTGGTGACAGATGGCACTGTTAAAATTGCTGACTTTGGGTTGG
EST: gi|86848584|gb|CI293908.1|CI293908
EST:     TCTTGCATATATGCATAACAACGGTTATTTCCATCGTGACCTGAAACCTG                         AAAATCTGTTGGTGACAGATGGCACTGTTAAAATTGCTGACTTTGGGTTGG
genomic: TCTTGCATATATGCATAACAACGGTTATTTCCATCGTGACCTGAAACCTGgtataccttt ... tcctctttagAAAATCTGTTGGTGACAGATGGCACTGTTAAAATTGCTGACTTTGGGTTGG
EST: gi|33381171|gb|CF196514.1|CF196514
EST:     TCTTGCATATATGCATAACAACGGTTATTTCCATCGTGACCTGAAACCTG                         AAAATCTGTTGGTGACAGATGGCACTGTTAAAATTGCTGACTTTGGGTTGG
genomic: TCTTGCATATATGCATAACAACGGTTATTTCCATCGTGACCTGAAACCTGgtataccttt ... tcctctttagAAAATCTGTTGGTGACAGATGGCACTGTTAAAATTGCTGACTTTGGGTTGG