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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTTCCTTCTTCCGGAATGATACGCGGTTGCGTGCTCTTCGTTTCCTTGACCATTTGCTTgtatgtgtctattactccagtttcttttcacagataagttagttgcttgtttcatatatatgcatatcatagcttgcttattttctatctgagaatctcg...

Basic information

species Oryza sativa
transcript LOC_Os01g42950.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g42950.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G061681_T02 (Zea mays), 5'ss of exon 6
GCTCTTCCTTCTTCCGGAATGATACGCGGTTGCGTGCTCTTCGTTTCCTTGACCATTTGCTTgtatgtgtctattactccagtttcttttcacagataagttagttgcttgtttcatatatatgcatatcatagcttgcttattttctatctgagaatctcg----------
| ||||| ||||||||| |||||||| ||||||| ||||||||||||||||||||||||||||||||| | | ||| |||  |||  |||       |  || |||  |   || | |  | ||| |||| | |  ||||| ||| || ||||| |||| |           
GTTCTTCTTTCTTCCGGGATGATACGAGGTTGCGCGCTCTTCGTTTCCTTGACCATTTGCTTgtatgtttttgttattcccctttagttt-------attttcgttaataagtttaaaggt-tgc-tatc-tggtgtgcttctttgctgtctgaaaatcacctttgactaga

upper sequence: LOC_Os01g42950.2 (Oryza sativa), 5'ss of exon 6
lower sequence: AT1G22870.1 (Arabidopsis thaliana), 5'ss of exon 6
GCTCTTCCTTCTTCCGGAATGATACGCGGTTGCGTGCTCTTCGTTTCCTTGACCATTTGCTTgtatgtgtctattactccagtt-tcttttcacagataagttagtt-gcttgtttcatatatatgcatatcatagcttgcttattt-tctatctgagaatctcg
| |||   || ||||| |  || ||  |||||||||| || ||||||||||| ||| ||||||||||| | |   | |  | |  || ||||| | | | || | || | | |||  | | ||||  |     | |     || ||| | |||   ||       
GATCTAGTTTTTTCCGAAGCGACACTAGGTTGCGTGCCCTCCGTTTCCTTGATCATATGCTTgtatgtatattaaattttaatcatcgtttcagacagacgtgattttgatagttggaaacatataaaacctttggggcatttttttatttattgcag-------
















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|58665583|gb|CK054269.1|CK054269
EST:     TCCGGAATGATACGCGGTTGCGTGCTCTTCGTTTCCTTGACCATTTGCTT                         GAGAGAGACAATATGCAGAAGACGGAGTTTCTGAAGGCATTATCGGATATG
genomic: TCCGGAATGATACGCGGTTGCGTGCTCTTCGTTTCCTTGACCATTTGCTTgtatgtgtct ... tcgtcttcagGAGAGAGACAATATGCAGAAGACGGAGTTTCTGAAGGCATTATCGGATATG