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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGACAGCCGATCATCTTCTCTACCCAAATCCTGGATCTGGATTGGTCCATGAACAGCATCTGCAATACTTCCATTTTCTTGGCAGTCTCCTTGGGAAGgtactttggttgtttatcttttctttttcttttctgtctactgctgactgatgtgcagaaccttgtagagcttaattaaatgatctttcacactgtatat...

Basic information

species Oryza sativa
transcript LOC_Os05g06690.2
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g06690.2 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM2G101098_T01 (Zea mays), 5'ss of exon 2
GAGACAGCCGATCATCTTCTCTACCCAAATCCTGGATCTGGATTGGTCCATGAACAGCATCTGCAATACTTCCATTTTCTTGGCAGTCTCCTTGGGAAGgtactttggttgtttatcttttctt-------tttcttttctgtctactgctgactgatgtg--cagaaccttgtagagcttaattaaatgatctttcacactgtatat
||||| || ||||||||| | |||||||| || ||||| |||||||| |||||||  ||||||||||| ||| |||||||||| ||||| ||||||||||||| |      ||| ||  |   |       |   |  ||| ||| ||     ||    |   | |    |||| |     ||| || || | |    |         
GAGACGGCTGATCATCTTTTGTACCCAAACCCAGGATCAGGATTGGTTCATGAACTACATCTGCAATATTTCAATTTTCTTGGAAGTCTACTTGGGAAGgtacatgccccctttttccgtcgctaagcagatacttgatctatctcctagattcttgcataatctggggtttgtggcctaaaatgaagtggtttgagcc---------

upper sequence: LOC_Os05g06690.2 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM2G034622_T01 (Zea mays), 5'ss of exon 2
GAGACAGCCGATCATCTTCTCTACCCAAATCCTGGATCTGGATTGGTCCATGAACAGCATCTGCAATACTTCCATTTTCTTGGCAGTCTCCTTGGGAAGgtactttggttgtttatcttttctttttcttttctgtctactgctga-ctgatgtgcagaaccttgtagagcttaattaaatgatctttcacactgtatat--
||||| || ||||||||| | |||||||| || ||||| |||||||| |||||||  ||||||||||| |||||||||||||| ||||| |||||||||||||||||    | |  | ||| |  |  |  |  |   |    ||| ||       |||  ||| |  |  ||       |  |     | | ||| ||   
GAGACTGCTGATCATCTTTTGTACCCAAACCCAGGATCAGGATTGGTTCATGAACTACATCTGCAATATTTCCATTTTCTTGGAAGTCTACTTGGGAAGgtactttgaccatgt-ccctttttcctgttgataaggagatacttgatctagctcctagattcttatgtaatttgg--ggtttgtggcctaaaatgtgtagtg

upper sequence: LOC_Os05g06690.2 (Oryza sativa), 5'ss of exon 17
lower sequence: AT3G17205.1 (Arabidopsis thaliana), 5'ss of exon 17
GAGACAGCCGATCATCTTCTCTACCCAAATCCTGGATCTGGATTGGTCCATGAACAGCATCTGCAATACTTCCATTTTCTTGGCAGTCTCCTTGGGAAGgtac----tttggttgtttatctt--ttctttttcttttctgtctactgctgactgatgtgcagaaccttgtagagcttaattaaatgatctttcacactgtatat
||||| || |||||  | || || || ||||||||||| ||| || | |||||||||||||| || | ||| |||||||| ||||||||||| |  || |||     |||| ||| |   |||  | |       ||    | |||   |   |  |    | ||| || || |  |     | |         | | ||     
GAGACCGCTGATCACATGCTTTATCCTAATCCTGGATCAGGAATGATACATGAACAGCATCTCCAGTTCTTTCATTTTCTCGGCAGTCTCCTCGCAAAAgtatggtatttgattggtggccttgatgcggaactcttataatttaccattttttactcctgaaaacttt-tatatataggacagaaagcaaactataatg-----

upper sequence: LOC_Os05g06690.2 (Oryza sativa), 5'ss of exon 17
lower sequence: Vv05s0077g00470.t01 (Vitis vinifera), 5'ss of exon 18
GAGACAGCCGATCATCTTCTCTACCCAAATCCTGGATCTGGATTGGTCCATGAACAGCATCTGCAATACTTCCATTTTCTTGGCAGTCTCCTTGGGAAGgtactttggttgtttatcttttctttttcttttctgtctactgctgactgatgtgcagaaccttgtagagcttaattaaatgatctttcacactgtatat-
|| ||||| ||||| || ||||||||||||||||| || ||| || | || ||||||||||| || |  |||||||||||||| | | | ||||||||||||   || |  ||  |||    | |  | ||| | | | |     |  | ||  | ||   |  |       ||||  | ||  ||   | ||||   | 
GAAACAGCTGATCACCTACTCTACCCAAATCCTGGGTCAGGAATGATACACGAACAGCATCTCCAGTTTTTCCATTTTCTTGGAACTGTTCTTGGGAAGgtatgatg-tgtttcctctcacttgtgccattttttttttccttataaagttgccctgagtgtgatcttctgaaatttgaagaatttctcctctgtggtta

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|58679845|gb|CK068532.1|CK068532
EST:     ATGAACAGCATCTGCAATACTTCCATTTTCTTGGCAGTCTCCTTGGGAAG                         GCAATCTATGAGGGCATACTTGTTGATCTGCCATTTGCAACATTCTTCTTG
genomic: ATGAACAGCATCTGCAATACTTCCATTTTCTTGGCAGTCTCCTTGGGAAGgtactttggt ... atgactccagGCAATCTATGAGGGCATACTTGTTGATCTGCCATTTGCAACATTCTTCTTG
EST: gi|29674112|gb|CB670387.1|CB670387
EST:     CTGCAATACTTCCATTTTCTTGGCAGTCTCCTTGGGAAG                         GCAATCTATGAGGGCATACTTGTTGATCTGCCATTTGCAACATTCTTCTTG
genomic: CTGCAATACTTCCATTTTCTTGGCAGTCTCCTTGGGAAGgtactttggt ... atgactccagGCAATCTATGAGGGCATACTTGTTGATCTGCCATTTGCAACATTCTTCTTG