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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGATGCTTTCCATCTCACCTTTGGTTGTGGAATCCTCACTTTCTCCTTGTTTGCCATGGCTGCCTCCAGAACCAAACCTGATCACCTCTACACCTACGGgtgcctccctccctcaatttactcctcttttctttaatcttccactcccactgattcattgctgcctttattcag

Basic information

species Oryza sativa
transcript LOC_Os02g58580.4
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g58580.4 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G017365_T08 (Zea mays), 5'ss of exon 2
CCGATGCTTTCCATCTCACCTTTGGTTGTGGAATCCTCACTTTCTCCTTGTTTGCCATGGCTGCCTCCAGAACCAAACCTGATCACCTCTACACCTACGGg---------tgcctccctccctcaatttactcctcttttct-ttaatct---------tccactcccactgattcattgctgcctttattcag
| ||||||||||||||||||||||| || ||  |  | |||||||| |||||||| |||||||| ||| ||||||| |||||| ||||||||||||| |||         |   |||||||| |  || |  |    ||||| ||  |||         | ||| | |||| |||  |  |||| ||  |||||
CAGATGCTTTCCATCTCACCTTTGGATGCGGCTTGTTAACTTTCTCATTGTTTGCTATGGCTGCATCCCGAACCAAGCCTGATAACCTCTACACCTATGGgccagtctcctcattccctcccgcctttcaggctctatttctgttcgtctgtgcactaattcacactcacttattgttgtctgctttctttcag

upper sequence: LOC_Os02g58580.4 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ16386 (Selaginella moellendorffii), 5'ss of exon 2
CCGATGCTTTCCATCTCACCTTTGGTTGTGGAATCCTCACTTTCTCCTTGTTTGCCATGGCTGCCTCCAGAACCAAACCTGATCACCTCTACACCTACGGgtgcctccctccctcaatttactcctcttttctttaatcttccactcccactgattcattgctgcctttattcag
| ||||||||||||||||| || || ||||| || |||||||||||||||||||| ||||      |||     ||| ||||  ||   || || |||||||   | | || |    ||| ||  ||| || |||    ||  | |     |  ||| | |  ||          
CGGATGCTTTCCATCTCACTTTCGGCTGTGGGATGCTCACTTTCTCCTTGTTTGCGATGGTCATGGCCAAGCGGAAAGCTGACGACGATTATACTTACGGgtcagtgcttcgcggctttttcttttctcttgtttgggattttagtgttcttccttc-tcgacgcag--------

upper sequence: LOC_Os02g58580.4 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ17851 (Selaginella moellendorffii), 5'ss of exon 2
CCGATGCTTTCCATCTCACCTTTGGTTGTGGAATCCTCACTTTCTCCTTGTTTGCCATGGCTGCCTCCAGAACCAAACCTGATCACCTCTACACCTACGGgtgcctccctccctcaatttactcctcttttctttaatcttccactcccactgattcattgctgcctttattcag
| ||||||||||||||||| || || ||||| || |||||||||||||||||||| ||||      |||     ||| ||||  ||   || || |||||||   | | || |    ||| ||  ||| || | |    ||  | |     |  ||| | |  ||          
CGGATGCTTTCCATCTCACTTTCGGCTGTGGGATGCTCACTTTCTCCTTGTTTGCGATGGTCATGGCCAAGCGGAAAGCTGACGACGATTATACTTACGGgtcagtgcttcgcggctttttcttttctcttgtgtgggattttagtgttcttccttc-tcgacgcag--------

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|29661173|gb|CB657448.1|CB657448
EST:     TTTGCCATGGCTGCCTCCAGAACCAAACCTGATCACCTCTACACCTACGG                         CTATAAAAGATTGGAGGTCCTTGCTGCCTTTACAAATGCC
genomic: TTTGCCATGGCTGCCTCCAGAACCAAACCTGATCACCTCTACACCTACGGgtgcctccct ... ctttattcagCTATAAAAGATTGGAGGTCCTTGCTGCCTTTACAAATGCC
EST: gi|29656007|gb|CB652282.1|CB652282
EST:     TTTGCCATGGCTGCCTCCAGAACCAAACCTGATCACCTCTACACCTACGG                         CTATAAAAGATTGGAGGTCCTTGCTGCCTTTACAAATGCC
genomic: TTTGCCATGGCTGCCTCCAGAACCAAACCTGATCACCTCTACACCTACGGgtgcctccct ... ctttattcagCTATAAAAGATTGGAGGTCCTTGCTGCCTTTACAAATGCC