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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCATTGAGATCCATCTCTTTTGGGCTGGCAAAGGCACTTGTTGTGTACCTACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAAgtaagcacaatatttttagttgactgcaactaggattatattggcttcttatgtgtaaaaccattttcttcag

Basic information

species Oryza sativa
transcript LOC_Os05g16824.1
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g16824.3 (Oryza sativa), 5'ss of exon 17
lower sequence: GLYMA09G15200.1 (Glycine max), 5'ss of exon 17
TTCATTGAGATCCATCTCTTTTGGGCTGGCAAAGGCACTTGTTGTGTACCTACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAAgtaagc----------acaatatttttagttgactgcaactaggat-tatattggcttcttatgtgtaaaa----ccattttcttcag------------
|   | ||||||||||||||||||||||| ||||| ||||||||| ||||   |||||||   || || ||   ||| |||||  | ||    |  ||| ||||            |||   |||| |  |   ||   | |  |  ||  |     | || | | | |      | |||||    ||            
TATCTAGAGATCCATCTCTTTTGGGCTGGAAAAGGGACTTGTTGTATACCAGTTCAAGGTACTTATGGGCCCCTGATTTCAGCCATTAGTGCTATCCCAGgtaaaacttaaaagagacaggcttttcatatatttggtccaaacacatacgtgaaaatgttgttttttatttttcctatttttgctagtcattatagtaa

upper sequence: LOC_Os05g16824.3 (Oryza sativa), 5'ss of exon 17
lower sequence: GLYMA08G25590.1 (Glycine max), 5'ss of exon 20
TTCATTGAGATCCATCTCTTTTGGGCTGGCAAAGGCACTTGTTGTGTACCTACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAAgtaagcacaatatttttagttgactgcaactaggatta--tattggcttct---tatgtgtaaaaccattttcttcag------------------------------------------------------
|   ||||||| ||||||||||||||||| ||||| ||||||||  |||| |||||||||   || || ||    ||   |||| |       | |||| ||||  || ||      | |||         | | |||  || |  | | |   ||||  |||  || | |     ||                                                      
TATCTTGAGATTCATCTCTTTTGGGCTGGAAAAGGTACTTGTTGCATACCAACTCAAGGTACTTATGGGCCCTTAATTCAAGCAATCCATGCTATTCCAGgtaa-tactatgaaaaaaattggtaatttagatgtttaattactaacctttcattatgcataatcccttatcagctagatattcaaaatttatatatttttttaatttgatacattgttttgtgttgtacag

upper sequence: LOC_Os05g16824.3 (Oryza sativa), 5'ss of exon 17
lower sequence: GLYMA08G25600.1 (Glycine max), 5'ss of exon 17
TTCATTGAGATCCATCTCTTTTGGGCTGGCAAAGGCACTTGTTGTGTACCTACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAAgtaa----gcacaatatttttagttgactgcaactaggatta-tattggcttcttatgtgtaaaaccattttcttcag------------------------------------------------------
|   ||||||| ||||||||||||||||| ||||| ||||||||  |||| |||||||||   || || ||    ||   |||| |       |  ||| ||||        || |  ||| ||    |  |  |   |||| ||     |  |||||  |||  || | |     ||                                                      
TATCTTGAGATTCATCTCTTTTGGGCTGGAAAAGGTACTTGTTGCATACCAACTCAAGGTACTTATGGGCCCTTAATTCAAGCAATCCATGCTATCCCAGgtaatactatgaaaaaaatttggtaatttagatgtttaattactaacctttcattatgcataatcccttatcagctagatattcaaaatttatatatatttttaatttgataaattgttttgtgttgtacag

upper sequence: LOC_Os05g16824.3 (Oryza sativa), 5'ss of exon 17
lower sequence: Vv12s0055g00590.t01 (Vitis vinifera), 5'ss of exon 43
TTCATTGAGATCCATCTCTTTTGGGCTGGCAAAGGCACTTGTTGTGTACCTACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAAgtaag-----cacaatatttttagttga---ctgcaactaggattatattggcttcttatgtgtaaaaccattttcttcag-----------
| |||||| |||||||||||||||||||| ||||| ||||| ||||||||| |||||||    || |||||  | || |||||| | ||    || ||||||||       | ||  | |||  |  |   | | |||||  ||  |  |    | | ||    | |   | |   | |             
TACATTGAAATCCATCTCTTTTGGGCTGGAAAAGGGACTTGCTGTGTACCTGCTCAAGGGACATATGGACCTTCTATTTCAGCAATCAGTGCTACCCCAAgtaatgtaattagaaactatttgatgcaaatcagtaactaaaatgttgatctactttcatactgatactgaatgattgctaaatttacacag

upper sequence: LOC_Os05g16824.3 (Oryza sativa), 5'ss of exon 17
lower sequence: Vv12s0055g00590.t01 (Vitis vinifera), 5'ss of exon 18
TTCATTGAGATCCATCTCTTTTGGGCTGGCAAAGGCACTTGTTGTGTACCTACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAAgtaa-------gcacaatatttttagttgact-gcaactaggattatattggcttcttatgtg-----taaaaccattttcttcag--
| |||||| |||||||||||||||||||| ||||| ||||| ||||||||| |||||||    || |||||  | || |||||| | ||    || ||| ||||       | |   |||||   |   |   | |||||  ||  |  |    | | ||        | | || |  || | ||   
TACATTGAAATCCATCTCTTTTGGGCTGGAAAAGGGACTTGCTGTGTACCTGCTCAAGGGACATATGGACCTTCTATTTCAGCAATCAGTGCTACCCCAGgtaatgcaattggaagctatttgatgcaaatcagtaactaaaatgttgatccactttcatactggtactgagactaaattttacacag

upper sequence: LOC_Os05g16824.3 (Oryza sativa), 5'ss of exon 17
lower sequence: Vv12s0055g00580.t01 (Vitis vinifera), 5'ss of exon 18
TTCATTGAGATCCATCTCTTTTGGGCTGGCAAAGGCACTTGTTGTGTACCTACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAAgtaag-----cacaatatttttagttga---ctgcaactaggattatattggcttcttatgtgtaaaaccattttcttcag-----------
| |||||| |||||||||||||||||||| ||| | ||||| ||||||||| |||||||    || |||||  | || |||||| | ||    || ||||||||       | ||  | |||  |  |   | | |||||  ||  |  |    | | ||    | |   | |   | |             
TACATTGAAATCCATCTCTTTTGGGCTGGAAAAAGGACTTGCTGTGTACCTGCTCAAGGGACATATGGACCTTCTATTTCAGCAATCAGTGCTACCCCAAgtaatgcaattagaaactatttgatgcaaatcagtaactaaaatgttgatccactttcatactgatactgagtgattgctaaatttacacag

upper sequence: LOC_Os05g16824.3 (Oryza sativa), 5'ss of exon 17
lower sequence: Vv12s0055g00660.t01 (Vitis vinifera), 5'ss of exon 8
TTCATTGAGATCCATCTCTTTTGGGCTGGCAAAGGCACTTGTTGTGTACCTACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAAgtaag-----cacaatatttttagttga---ctgcaactaggattatattggcttcttatgtgtaaaaccattttcttcag------------
| |||||| |||||||||||||||||||| ||||| ||||| || |||||| |||||||    || |||||  | || |||||| | ||   ||| ||| ||||      || ||  | |||  |  |   | | |||||  ||  |  |    | | ||    | |   | |   | |              
TACATTGAAATCCATCTCTTTTGGGCTGGAAAAGGGACTTGCTGCGTACCTGCTCAAGGGACATATGGACCTTCTATTTCAGCAATCAGTGCCACCCCAGgtaacgcaatcagaaactatttgatgcagatcagtaactaaaatgttgatccactttcatactgatactgagtgattactaaattttacacag

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|58679752|gb|CK068439.1|CK068439
EST:     TACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAA                         ATTTTACTCCCACTGTACGGAATGGGGTACCAAAAAAGAGAAGTAAAGCAG
genomic: TACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAAgtaagcacaa ... ttttcttcagATTTTACTCCCACTGTACGGAATGGGGTACCAAAAAAGAGAAGTAAAGCAG
EST: gi|218482657|gb|FG955336.1|FG955336
EST:     TACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAA                         ATTTTACTCCCACTGTACGGAATGGGGTACCAAAAAAGAGAAGTAAAGCAG
genomic: TACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAAgtaagcacaa ... ttttcttcagATTTTACTCCCACTGTACGGAATGGGGTACCAAAAAAGAGAAGTAAAGCAG
EST: gi|29627080|gb|CB632091.1|CB632091
EST:     TACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAA                         ATTTTACTCCCACTGTACGGAATGGGGTACCAAAAAAGAGAAGTAAAGCAG
genomic: TACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAAgtaagcacaa ... ttttcttcagATTTTACTCCCACTGTACGGAATGGGGTACCAAAAAAGAGAAGTAAAGCAG
EST: gi|88383614|gb|CI543387.1|CI543387
EST:     TACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAA                         ATTTTACTCCCACTGTACGGAATGGGGTACC
genomic: TACTCAAGGTCACTACGGACCGACGATCTCAGCATTAAGCATCACTCCAAgtaagcacaa ... ttttcttcagATTTTACTCCCACTGTACGGAATGGGGTACC