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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGCTACCAAGTATGTCAGCTTCAAATGAGAAGTGGATTGATGGGCTCCAGTTCTCATCACTGTTCTGGCCCCCACCACAGGATTCACAACAAAAACAGgtaacattattcctatttgattcttgttagaaattctatatgttgaacatacttgcctcaatgggaaacttggttgcgtctcctctctgaag

Basic information

species Oryza sativa
transcript LOC_Os01g08700.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g08700.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM5G844173_T01 (Zea mays), 5'ss of exon 2
TGAGCTACCAAGTATGTCAGCTTCAAATGAGAAGTGGATTGATGGGCTCCAGTTCTCATCACTGTTCTGGCCCCCACCACAGGATTCACAACAAAAACAGgtaacattattcctatttgattcttgttagaaattctata-tgttgaacatacttgcctca-atgggaaacttggttg--cgtctcctctctgaag
|||||||||||| |||||||  ||||||| |||||||||||||||||| || ||| ||||| ||| |||||| ||||| ||||||    | || || |||||| | || || ||  |||| | | |||    || ||||| | || |  |||||||    | || | ||||    |||  | | || | | |||||
TGAGCTACCAAGCATGTCAGAATCAAATGTGAAGTGGATTGATGGGCTTCACTTCACATCATTGTACTGGCCTCCACCCCAGGATGTGGAGCAGAAGCAGgtatctttcttgcttattgaatttggttgtctatgctataattttcatgatacttggtgtagattgcaaacacctttggtcatttcttgtttgaag

upper sequence: LOC_Os01g08700.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G107101_T05 (Zea mays), 5'ss of exon 3
TGAGCTACCAAGTATGTCAGCTTCAAATGAGAAGTGGATTGATGGGCTCCAGTTCTCATCACTGTTCTGGCCCCCACCACAGGATTCACAACAAAAACAGgtaacattattcctatttgattcttgttagaaattctata-tgttgaacatacttgcctcaat--gggaaacttggttgcgtctcctctctgaag
|||||||||||| ||||||| |||||||| ||||||||||||||||||||||||| ||||| ||| |||||| ||||| |  ||| |  | || || |||||  | || || ||  |||| | |||||    || ||||| | || |  |||||||    | |     ||   |  | ||   || | | |||||
TGAGCTACCAAGCATGTCAGATTCAAATGTGAAGTGGATTGATGGGCTCCAGTTCACATCATTGTACTGGCCTCCACCCCTCGATGCGGAGCAGAAGCAGgtgtctttcttgcttattgagttttgttgtctatgctataattttcatgatacttgatgtagttcacaaacacttttggccattcttgtttgaag
















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|29636922|gb|CB641931.1|CB641931
EST:     CCACCACAGGGATTCCCTTCAAAAACAG                         GCACAAATTCTGGCCTATGTTGAGTACTTTGGCCAGTTTACAGCTGACAGT
genomic: CCACCACA-GGATTCACAACAAAAACAGgtaacattat ... ctctctgaagGCACAAATTCTGGCCTATGTTGAGTACTTTGGCCAGTTTACAGCTGACAGT
EST: gi|29642016|gb|CB647023.1|CB647023
EST:     AGTTCTCATCACTGTTCTGGCCCCCACCACAGGATTCACAACAAAAACAG                         GCACAAATTCTGGCCTATGTTGAGTACTTTGGCCAGTTTACAGCTGACAGT
genomic: AGTTCTCATCACTGTTCTGGCCCCCACCACAGGATTCACAACAAAAACAGgtaacattat ... ctctctgaagGCACAAATTCTGGCCTATGTTGAGTACTTTGGCCAGTTTACAGCTGACAGT