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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTGCCCTGCTTGTCGTGGATGCGGACGTACAGGTTGAAGGAGGATCTGCAGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAAgtacattctttaccctcgtgattcgcaacatttcgtattgctatgcacggcttcaactgttcctaatcctggttatcaaacgggaaagatatggttatat...

Basic information

species Oryza sativa
transcript LOC_Os09g06499.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g06499.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G068212_T01 (Zea mays), 5'ss of exon 1
TCTGCCCTGCTTGTCGTGGATGCGGACGTACAGGTTGAAGGAGGATCTGCAGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAAgtacattctttaccctcgtgattcgcaacatttcgtattgctatgcacggcttcaactgttcctaatcctggttatcaaacgggaaagatatggttatat------
  |||| ||  || ||||||  ||||  ||||| | |||| |||| || ||||||||||||||| | ||||||||||| || |||||||| |||||||| |||||  |  |  | ||  ||          ||  | |||  || | | |  | |   | |  |  |  || |||| |       |   | |  ||  |       
CTTGCCGTGTGTGGCGTGGACACGGAACTACAGATGGAAGCAGGACCTCCAGGCCGACCTCGCCTCGGGCATCACCGTTGGAGTCATGCTTGTGCCCCAGgtacacccactggc-tcccgacgtatg----ttttttttgagatactccgtct-actagattgttgtgttgcttataaggatttgagtgtctccttggagaaacga
















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|29643060|gb|CB648067.1|CB648067
EST:     AGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAA                         GCAATGTCATATGCAAAGTTGGCTGGGCTTCACCCAATATATGAGGTTAT
genomic: AGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAAgtacattctt ... tgtattgtagGCAATGTCATATGCAAAGTTGGCTGGGCTTCACCCAATATATG-GGTTAT
EST: gi|29678820|gb|CB675095.1|CB675095
EST:     AGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAA                         GCAATGTCATATGCAAAGTTGGCTGGGCTTCACCCAATATATGGGTTAT
genomic: AGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAAgtacattctt ... tgtattgtagGCAATGTCATATGCAAAGTTGGCTGGGCTTCACCCAATATATGGGTTAT
EST: gi|117236351|gb|CT842269.1|CT842269
EST:     AGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAA                         GCAATGTCATATGCAAAGTTGGCTGGGCTTCACCCAATATATGGGTTAT
genomic: AGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAAgtacattctt ... tgtattgtagGCAATGTCATATGCAAAGTTGGCTGGGCTTCACCCAATATATGGGTTAT
EST: gi|29614648|gb|CB619661.1|CB619661
EST:     AGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAA                         GCAATGTCATATGCAAAGTTGGCTGGGCTTCACCCAATATATGGGTTAT
genomic: AGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAAgtacattctt ... tgtattgtagGCAATGTCATATGCAAAGTTGGCTGGGCTTCACCCAATATATGGGTTAT
EST: gi|29674506|gb|CB670781.1|CB670781
EST:     AGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAA                         GCAATGTCATATGCAAAGTTGGCTGGGCTTCACCCAATATATGGGTTAT
genomic: AGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAAgtacattctt ... tgtattgtagGCAATGTCATATGCAAAGTTGGCTGGGCTTCACCCAATATATGGGTTAT
EST: gi|38474049|gb|CF958181.1|CF958181
EST:     AGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAA                         GCAATGTCATATGCAAAGTTGGCTGGGCTTCACCCAATATATGGGTTAT
genomic: AGGCCGACCTCGCCGCTGGCATCACCGTCGGCGTCATGCTCGTGCCCCAAgtacattctt ... tgtattgtagGCAATGTCATATGCAAAGTTGGCTGGGCTTCACCCAATATATGGGTTAT