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'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaattttttcgtgtgcatccttaaatacatttatatgcattggatgatacctatttatttggcctatgtaaacaacagttgtactattaacaaagtgatttattttgactttcatatgatacgcagGCATATATGGTTGAGCTTTATCAGGATAATCTTGTGGACCTGTTGTTGGCCAAAAACGCAACACACCAAAAATTGGAAATAAAAAAGGATTCCAAG

Basic information

species Oryza sativa
transcript LOC_Os04g57140.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g57140.1 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G423861_T01 (Zea mays), 3'ss of exon 19
gtaacaattttttcgtgtgcatccttaaatacatttatatgcattggatgatacctatttatttggcctatgtaaacaacagttgtactattaacaaagtgatttattttgactttcatatgatacgcagGCATATATGGTTGAGCTTTATCAGGATAATCTTGTGGACCTGTTGTTGGCCAAAAACGCAACACACCAAAAATTGGAAATAAAAAAGGATTCCAAG
                  | |    | | | || | | |     || |||     | || |  ||   | | || |    |  | | |  |  | |      ||    || | || ||| | ||| |||| |||||||||| ||||||||||| ||||||||||||||||| |||||| ||| ||| |  |  |  | ||| || || |||||||| |||||||||
------------------gaaaaagtgacttcagtgacactt-ctgcatg-----ttttaacatgttttctttagatcctaagtatgccttcgata------ttatccttaaattgcattttataagcagACATATATGGTGGAGCTTTATCAAGATAATCTTGTGGACCTATTGTTGCCCAGAAATGTGAAGCCGCTAAAGTTAGAGATAAAAAAAGATTCCAAG

upper sequence: LOC_Os04g57140.1 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G070273_T01 (Zea mays), 3'ss of exon 18
gtaacaattttttcgtgtgcatccttaaatacatttatatgcattggatgatacctatttatttggcctatgtaaacaacagttgtactattaacaaagtgatttattttgactttcatatgatacgcagGCATATATGGTTGAGCTTTATCAGGATAATCTTGTGGACCTGTTGTTGGCCAAAAACGCAACACACCAAAAATTGGAAATAAAAAAGGATTCCAAG
                        | |  || ||||||||        |   || |||||        | | || |   ||  | | |  |  | |      ||    || | ||   | | ||||||||||||||||||| ||||||||||| |||||||||||||||||||| ||| ||| ||| ||||  || |  || || || |||||||| |||||||||
----------------------aatgacttatatttatatctgacacttt-cacatattttaacacgttctttagatc-caagtatgccttctata------ttatccttaaattctgttttatacgcagGCATATATGGTGGAGCTTTATCAAGATAATCTTGTGGACCTGTTATTGCCCAGAAATGCAAAGCAGCTGAAGTTAGAGATAAAAAAAGATTCCAAG
















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|1438556|gb|U60306.1|U60306
EST:     TTTTTAGGGTGATAAAGCGTGATGGTCACAAATATTCATTTTCTTTGAAG                         GCATATATGGTTGAGCTTTATCAGGATAA
genomic: TTTTTAGGGTGATAAAGCGTGATGGTCACAAATATTCATTTTCTTTGAAGgtaacaattt ... tgatacgcagGCATATATGGTTGAGCTTTATCAGGATAA
EST: gi|58656142|gb|CK044822.1|CK044822
EST:     TTTTTAGGGTGATAAAGCGTGATGGTCACAAATATTCATTTTCTTTGAAG                         GCATATATGGTTGAGCTTTATCAGGATAATCTTGTGGACCTGTTGTTGGCC
genomic: TTTTTAGGGTGATAAAGCGTGATGGTCACAAATATTCATTTTCTTTGAAGgtaacaattt ... tgatacgcagGCATATATGGTTGAGCTTTATCAGGATAATCTTGTGGACCTGTTGTTGGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaacagttgtactattaacaaagtgatttattttgactttcatatgatacgcagGCATATATGGTTGAGCTTTATCAGGATAATCTTGTGGACCTGTTGTTGGCCAAAAACGCAACACACCAAAAATTGGAAATAAAAAAGGATTCCAAG
             tattaacaaagtgatt  TA-rich tract