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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTATGATGAGATTGTTCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAGgtgagggcttgctagggtgcaatttaggctgttagtttcctgagaaactaccagcagtcctactatgaactccaaatccaaatctatgtactgcaactaacatgtgcccatttcggtttacaacag

Basic information

species Oryza sativa
transcript LOC_Os01g39310.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g39310.3 (Oryza sativa), 5'ss of exon 7
lower sequence: AC196426.3_FGT007 (Zea mays), 5'ss of exon 6
GTTATGATGAGATTGTTCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAGgtgagggcttgctagggtgcaatttaggctgttagtttcctgagaaactaccagcagtcctactatgaactccaaatccaaatctatgtactgcaactaacatgtgcccatttcggtttacaacag
|| |||||||| ||||||||||| || ||||| ||||||||||||||||| ||||| ||||||| ||| ||||||||||                |||||    | || |||        || || |||| |    | || ||   | |   ||||    |||||      || | ||| |||||    |||
GTCATGATGAGGTTGTTCAGTCCTCGCAAAACAACATTGTTGTTTGTTATACGTGACAAATCAAGGgtaagggcttgct----------------tgtta----catgtgaa--------caatc-tactttccttttcacatttgatttcttgtatactaactattg---gctccttttggtttcttgcag

upper sequence: LOC_Os01g39310.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA15G02780.1 (Glycine max), 5'ss of exon 7
GTTATGATGAGATTGTTCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAGgtgagggcttgctagggtgcaatttaggctgttagtttcctgagaaactaccagcagtcctactatgaactccaaatccaaatctatgtact--gcaactaacatgtgcccatttcggtttacaacag
|| |||||||||||||| |||||||| ||||| ||| |||||||||| || ||||||||  |||||||| |        | | |||   ||    || || ||  || |  |  | || | | | | | | |  | |    ||  |  | ||| ||||  |    |||| | | ||  |    |          
GTCATGATGAGATTGTTTAGTCCACGCAAAACAACAATGTTGTTTGTCATACGTGATAAGACAAAGgtgtgacagcaaaatgttgctgcttgttttgataatt--ctaaatattttcctgtatttc-attttttattgtttatatatctttatttactatgtggttaaccttttcctttcgtag----------

upper sequence: LOC_Os01g39310.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA08G20610.1 (Glycine max), 5'ss of exon 7
GTTATGATGAGATTGTTCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAGgtgagggcttgctagggtgcaatttaggctgttagtttcctgagaaactaccagcagtcctactatgaactccaaatccaaatctatgtactgcaactaacatgtgcccatttcggtttacaacag
|| |||||||||||||| |||||||| ||||| |||||| ||||||| || ||||||||| ||| |||| |   | |||   ||  | | |    | ||| |||  | |  |  |    |   |  |  | | || || |||| |   | ||| |  ||    |    | |  || || |  |||| |    
GTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGCTGTTTGTCATACGTGATAAAACAAGGgtgtgtaatagct---gtttattat----tattatttttgtaattatttgtatgttata-tgtttttaattctaaatac--ttttatttgttgttgatgtggt-taacctttcccttttatag---

upper sequence: LOC_Os01g39310.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA13G42650.1 (Glycine max), 5'ss of exon 8
GTTATGATGAGATTGTTCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAGgtgagggcttgctagggtgcaatttaggctgttagtttcctgagaaactaccagcagtcctactatgaactccaaatccaaatctatgtactgcaactaacatgtgcccatttcggtttacaacag
|| |||||||||||||| |||||||| ||||| ||| |||||||||| || ||||||||  |||||||| |        | | |||   ||    || || ||  || |  |  |  | |   | |   | || | |    ||  |  |  || ||||   |           || ||||  || | |    
GTCATGATGAGATTGTTTAGTCCACGCAAAACAACAATGTTGTTTGTCATACGTGATAAGACAAAGgtgtgaaagcaaaatgttgctgcttgttttgataatt--ctaaatatttttctgtgtttcatttttgtattgtttatatatcttcatttactatgat--gtgatcaaccttttccattcatag---

upper sequence: LOC_Os01g39310.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA07G01230.1 (Glycine max), 5'ss of exon 7
GTTATGATGAGATTGTTCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAGgtgagggcttgctagggtgcaatttaggctgttagtttcctgagaaactaccagcagtcctactatgaactccaaatccaaatctatgtactgcaactaacatgtgcccatttcggtttacaacag
|| |||||||||||||| |||||||| ||||| |||||||||||||| || || |||||| ||| |||| |   | |||           |    | ||  |||  | |  |  |    |   |  || | | || || |||| |   | | |||  |  |  |  |   |  || || |  |||| |    
GTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGTTGTTTGTCATACGCGATAAAACAAGGgtgtgtaatagctg---------cttatttattttttttgtaattatttgtttgttata-tatttttaattctaaatacttttgtttgttgttgatgtggc---taacctttcccttttatag---

upper sequence: LOC_Os01g39310.3 (Oryza sativa), 5'ss of exon 7
lower sequence: AT1G72960.1 (Arabidopsis thaliana), 5'ss of exon 7
GTTATGATGAGATTGTTCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAGgtgagggcttgctagggtgcaatttaggctgttagtttcctgagaaactaccagcagtcctactatgaactccaaatccaaatctatgtactgcaactaacatgtgcccatttcggtttacaacag
|| |||||| ||||||| |||||||||||||| ||| || ||||||| || || |||||| |   |||     ||        | |  | ||   |  |  || | |   | | |   | |||  |||    | ||    | |    ||  ||| | |    ||                            
GTGATGATGCGATTGTTTAGTCCACGTAAAACAACAATGCTGTTTGTAATACGAGATAAAACCCGGgtacactctcttcttttttctttgtatcattcttcttacattgcagatttgtaacag--ctaactggtacatacattgtctattgatg-attttggctgcag------------------------

upper sequence: LOC_Os01g39310.3 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 5'ss of exon 7
GTTATGATGAGATTGTTCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAGgtgagggcttgctagggtgcaatttaggctgttagtttcctgagaaactaccagcagtcctactatgaactccaaatccaaatctatgtactgcaactaac--------atgtgcccatttcggtttacaacag
||||||||| ||||||| |||||||| ||||| || ||| |||||||||||||||||||| ||| |||| |   |  ||   ||||  | |  | ||||| |     |||  |   | || | |     | |    |         ||   |  || |      | |        | ||||  ||||   ||    ||||
GTTATGATGCGATTGTTTAGTCCACGAAAAACAACTTTGATGTTTGTTATTCGTGATAAAACAAGGgtgtgttttctctcttgtgccttatttgatgtta-tagtgcgagggatagctagtattttagttgtatgtttgtttgtttaagtgagatattaaggtgagctgaactttaagtgctgattttttttgtatacag

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|29675672|gb|CB671947.1|CB671947
EST:     TCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAG                         ACACCTCTGGAAAATCTTGAACCGATTCTAAGGGAAGATATTCAGAAG
genomic: TCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAGgtgagggctt ... tttacaacagACACCTCTGGAAAATCTTGAACCGATTCTAAGGGAAGATATTCAGAAG
EST: gi|29671821|gb|CB668096.1|CB668096
EST:     TCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAG                         ACACCTCTGGAAAATCTTGAACCGATTCTAAGGGAAGATATTCAGAAG
genomic: TCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAGgtgagggctt ... tttacaacagACACCTCTGGAAAATCTTGAACCGATTCTAAGGGAAGATATTCAGAAG
EST: gi|29664221|gb|CB660496.1|CB660496
EST:     TCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAG                         ACACCTCTGGAAAATCTTGAACCGATTCTAAGGGAAGATATTCAGAAG
genomic: TCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAGgtgagggctt ... tttacaacagACACCTCTGGAAAATCTTGAACCGATTCTAAGGGAAGATATTCAGAAG
EST: gi|29632288|gb|CB637297.1|CB637297
EST:     TCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAG                         ACACCTCTGGAAAATCTTGAACCGATTCTAAGGGAAGATATTCANAAG
genomic: TCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAGgtgagggctt ... tttacaacagACACCTCTGGAAAATCTTGAACCGATTCTAAGGGAAGATATTCAGAAG