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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTATATTGGATCTGTTTCCTTTTTAACTACTGTACTACAAGTTGTTGACAAATTACGATCAGTCAATCCTGATCTTGTATATGgtaatcttttctcatctttcattatctattcttctctatggtgttttgtctctaccaaattttatagggcaattgtgtcatagctcaagactgattacgaatgactgatatctgtttgctaatgttctgcag

Basic information

species Oryza sativa
transcript LOC_Os12g40830.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g40830.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G398107_T01 (Zea mays), 5'ss of exon 4
GTTATATTGGATCTGTTTCCTTTTTAACTACTGTACTACAAGTTGTTGACAAATTACGATCAGTCAATCCTGATCTTGTATATGgtaatcttttctcatctttcattatctattcttctctatggtgttttgtctctaccaaattttataggg-caat---tgtgtcatagctcaagactgattacgaatgactgatatctgtttgctaat-------gttctgcag
|||| || ||  | ||||||||||||| |||| | |||||||||||||||||||||||||||||||||||||| |||||||| ||||| |||||| ||||||   |||| |||     |       | ||  ||| ||  |||||| || ||| |||     || ||||| ||  ||| ||  || | |||  | ||   |||||||||||        || |||||
GTTACATAGGCCCGGTTTCCTTTTTAAATACTATGCTACAAGTTGTTGACAAATTACGATCAGTCAATCCTGACCTTGTATACGgtaaccttttcccatcttctgttatttatgtgctt-------gcttcttctttagtaaatttaattgggacaagatacgtctcataactagagattggctaggcatggttcattcttgtttgctaattgcaaacattatgcag

upper sequence: LOC_Os12g40830.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G069758_T02 (Zea mays), 5'ss of exon 6
GTTATATTGGATCTGTTTCCTTTTTAACTACTGTACTACAAGTTGTTGACAAATTACGATCAGTCAATCCTGATCTTGTATATGgtaatcttttctcatctttcattatctattcttctctatggtgttttgtctctaccaaattttataggg-caatt-gtgtcatagctcaagactgattacgaatgactgata--tctgtttgctaat-------gttctgcag
||||||| || || ||||||||||||  |||||| |||||||||||||| ||||| |||||||| ||||||||||||||||||||||||||||||||||||||  |||| | |     |   |  | |||  |    |   ||||| | |||| |||||   |||||||||  ||||||| ||   |||  | ||   |||||||||||||        | ||||||
GTTATATAGGCTCAGTTTCCTTTTTAGATACTGTGCTACAAGTTGTTGAGAAATTGCGATCAGTTAATCCTGATCTTGTATATGgtaatcttttctcatcttttgttatttgtatgcttgcttcttctttaataa--atttaatttaacagggacaatttaggtcatagctagagactgactagacatggttaattcttctgtttgctaattgcaaacatgctgcag
















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|568331|gb|D39176.1|D39176
EST:     CTGATCTTGTATATG                         TTTGTGACCCGGTTCTAGGTGATGAAGGGAAACTATATGTCCCTCAGGATT
genomic: CTGATCTTGTATATGgtaatctttt ... tgttctgcagTTTGTGACCCGGTTCTAGGTGATGAAGGGAAACTATATGTCCCTCAGGATT
EST: gi|58661072|gb|CK049752.1|CK049752
EST:     ACTACAAGTTGTTGACAAATTACGATCAGTCAATCCTGATCTTGTATATG                         TTTGTGACCCGGTTCTAGGTGATGAAGGGAAACTATATGTCCCTCAGGATT
genomic: ACTACAAGTTGTTGACAAATTACGATCAGTCAATCCTGATCTTGTATATGgtaatctttt ... tgttctgcagTTTGTGACCCGGTTCTAGGTGATGAAGGGAAACTATATGTCCCTCAGGATT
EST: gi|66924011|gb|CX110859.1|CX110859
EST:     ACTACAAGTTGTTGACAAATTACGATCAGTCAATCCTGATCTTGTATATG                         TTTGTGACCCGGTTCTAGGTGATGAAGGGAAACTATATGTCCCTCAGGATT
genomic: ACTACAAGTTGTTGACAAATTACGATCAGTCAATCCTGATCTTGTATATGgtaatctttt ... tgttctgcagTTTGTGACCCGGTTCTAGGTGATGAAGGGAAACTATATGTCCCTCAGGATT