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'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   		27  
 5'  3'   		28  
 5'  3'   		29  
 5'  3'   		30  
 5'  3'   		31  
 5'  3'   		32  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTTAGGGGCACAAGCCTTTTGCAGCTAAAAAACGACAACCAGGCACATGCAGACAAAGTCAAAAATACCTTCATATTCAATACATTTGTTCTCTGTCAGgtgagttaccactgttttactatttctcttttaaccacccccctcccccgccccccagtttcctcatgtagcttacatccatttatatcaatgaaatggtctaccttctcacgtaaaaaaaaaacataatactttcatcctcag

Basic information

species Oryza sativa
transcript LOC_Os04g51610.3
intron # 30
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g51610.3 (Oryza sativa), 5'ss of exon 30
lower sequence: GRMZM2G140328_T03 (Zea mays), 5'ss of exon 30
CTTTAGGGGCACAAGCCTTTTGCAGCTAAAAAACGACAACCAGGCACATGCAGACAAAGTCAAAAATACCTTCATATTCAATACATTTGTTCTCTGTCAGgtgagttaccactgttttactatttctcttttaaccacccccctcccccgccccccagtttcctcatgtagcttacatccatttatatcaatgaaatggtctaccttctcacgtaaaaaaaaaacataatactttcatcctcag
||| | ||| | ||||||  ||||| | ||||| ||  | |  ||||||||||| ||||| |||||||||||||| ||||| |||||||||||||| |||||       |   ||||||   |||   |   ||  |     || ||       | | |        | |||||  || ||     |  || | | | ||    | |  || ||  ||      | |  ||             
CTTCAAGGGAATAAGCCTCCTGCAGTTGAAAAATGATGATCCAGCACATGCAGATAAAGTGAAAAATACCTTCATTTTCAACACATTTGTTCTCTGCCAGgt------tctgcgttttagcttttgcttagaaaagatgtttctgcctttttgtctaatgcggctccggagctt-tataca-----acaaacgcagtagt--ggcctgacatgtgtaattttgtcttcttag------------

upper sequence: LOC_Os04g51610.3 (Oryza sativa), 5'ss of exon 30
lower sequence: GRMZM2G391042_T01 (Zea mays), 5'ss of exon 30
CTTTAGGGGCACAAGCCTTTTGCAGCTAAAAAACGACAACCAGGCACATGCAGACAAAGTCAAAAATACCTTCATATTCAATACATTTGTTCTCTGTCAGgtgagttaccactgttttactatttctcttttaaccacccccctcccccgccccccagtttcctcatgtagcttacatc-catttatatcaatgaaatggtctaccttctcacgtaaaaaaaaaacataatactttcatcctcag
||| | ||| | ||||||  ||||| | ||||| ||  | |  ||||||||||| ||||| |||||||||||||||||||| |||||||||||||| |||||         | | |||  |  || |     ||    |  |||         |     |  |||  |    ||| |   ||  |  |  | ||   ||   |      |   ||      |                       
CTTCAAGGGGATAAGCCTCCTGCAGTTGAAAAATGATGATCCAGCACATGCAGATAAAGTGAAAAATACCTTCATATTCAACACATTTGTTCTCTGCCAGgttctgcgtttcagcttttatgcttataaaagaagtttctgccttttttttgtctattgtaactccggggctttatacaacaaatgcagtagtggcctgacatgtgcatttttgtcttgttag----------------------

upper sequence: LOC_Os04g51610.3 (Oryza sativa), 5'ss of exon 30
lower sequence: GLYMA09G06890.1 (Glycine max), 5'ss of exon 29
CTTTAGGGGCACAAGCCTTTTGCAGCTAAAAAACGACAACCAGGCACATGCAGACAAAGTCAAAAATACCTTCATATTCAATACATTTGTTCTCTGTCAGgtgagttaccactgttttactatttctcttttaaccacccccctcccccgccccccagtttcctcatgtagcttacatccatttatatcaatgaaatggtctaccttctcacgtaaaaaaaaaacataatactttcatcctcag
 ||  | |||| |||| |  ||   || |   | ||||   | |  ||||||  |||||| || ||||| || ||||||||| |||||||||||||||| || |||   ||        || || | |   || | |     ||            | |||  |       |    ||  |||||| |    |    ||                                             
TTTCCGAGGCATAAGCATACTGGGTCTGAGCCATGACAGAAAAGACCATGCAATCAAAGTGAAGAATACTTTGATATTCAATGCATTTGTTCTCTGTCAAgtaagtcttcatgac----ctgttacacagatagctatgtgactataatata----aattttatataaccccagttatttatttattttggggggggggggggggggg------------------------------------

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|218500877|gb|FG965670.1|FG965670
EST:     CAGACAAAGTCAAGAATAACTTCATATTCAATACATTTGTTCTCTGTCAG                         GTGTTCAATGAATTCAATGCTAGGAAGCCCGATGAGCTGAACATATTCA
genomic: CAGACAAAGTCAAAAATACCTTCATATTCAATACATTTGTTCTCTGTCAGgtgagttacc ... tcatcctcagGTGTTCAATGAATTCAATGCTAGGAAGCCCGATGAGCTGAACATATTCA