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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCAAACTCTCCTAAAAGGGTTGGAAAAAATAGCTGTTAGTGCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtataaatatgctatcactgtagtatttatttggtaaaattattttgaaaccatggacttctaagtactcaattatgctttcag

Basic information

species Oryza sativa
transcript LOC_Os10g27230.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g27230.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G043509_T02 (Zea mays), 5'ss of exon 9
GTTCAAACTCTCCTAAAAGGGTTGGAAAAAATAGCTGTTAGTGCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtataaatatgcta-tcactgtagtatttatttggtaaaattattttgaaaccatggacttctaagtactcaattatgc-tttcag
||||| || ||| ||||||| ||||| || |||||||| || || |||||||| |||||||||||||| |||||||| ||   |||||||||||| || |  || ||  | |||  | | |||||||  | |    || || |  ||| |||   || |||   | ||||| | | ||||||
GTTCATACCCTCTTAAAAGGATTGGAGAAGATAGCTGTCAGCGCAGACATTCCTATGTTGGTCTGTGGAGATTTCAACTCGCCCCCTGGGAGgtgcgtctgcatttggaaatcatggcaatatttatcagtt----tttttcttgaactatgattttttaatcgcacaattgtacatttcag

upper sequence: LOC_Os10g27230.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G118467_T03 (Zea mays), 5'ss of exon 9
GTTCAAACTCTCCTAAAAGGGTTGGAAAAAATAGCTGTTAGTGCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtataaatatgcta-tcactgtagtatttatttggtaaaattattt-tgaaaccatggacttctaagtactcaattatgc-tttcag
||||| || ||||||||||| ||||| || |||||||| ||||| |||||||| |||||||||||||| |||||||| |||  ||||||||||||  | |  || ||  | |||  | | ||||||   |||   ||| ||| |  ||| ||||   |||||| || ||||| | | ||||||
GTTCATACCCTCCTAAAAGGATTGGAGAAGATAGCTGTCAGTGCAGACATTCCTATGTTGGTCTGTGGAGATTTCAACTCAACCCCTGGGAGgtgcatctgcatttgaaaatcatggcaatatttaacaggttttattttttcttgaacaatggttgtctaagcacacaattgtacatttcag

upper sequence: LOC_Os10g27230.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA02G26620.1 (Glycine max), 5'ss of exon 8
GTTCAAACTCTCCTAAAAGGGTTGGAAAAAATAGCTGTTAGTGCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtg----tgtataaatatgctatcact-gtagtattt--atttggtaa----aattattttgaaaccatggacttctaagtactcaattatgctttcag
||||| |||||| ||||||||||||||||||||||||  || || |||||||| |||||||| ||||| ||||| |||||||| || || ||||     | | |   ||||  || | | ||||| |||  |||| ||||     || || ||   |  ||| | |  |  | |||  ||||         
GTTCATACTCTCTTAAAAGGGTTGGAAAAAATAGCTGCAAGCGCAGACATTCCGATGTTGGTTTGTGGAGATTTTAATTCAGTTCCAGGAAGgtacttctttttctttatgtaattatttgtagtgtttttattttgtaataaggatcatatttttataatg-attattttgaacttcattacag------

upper sequence: LOC_Os10g27230.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA03G36550.1 (Glycine max), 5'ss of exon 8
GTTCAAACTCTCCTAAAAGGGTTGGAAAAAATAGCTGTTAGTGCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtataaatatgcta--tcactgtag-tatttat--ttggtaaaattattttgaaaccatggacttctaagtactcaa--ttatgctttcag----------
|| || |||||| | ||||| ||||| ||||| ||||  ||||| || |||||||||||||| |||||||| || |||||| | || || |||| ||  ||  | |  |   | ||| | | || || |  |  | ||   | |||||  |  ||  |    |   | || ||  ||||  | | |           
GTGCACACTCTCTTGAAAGGATTGGAGAAAATTGCTGCAAGTGCAGATATTCCAATGTTGGTTTGTGGGGACTTTAATTCAATTCCAGGAAGgtctgagtactttttttgattaactttggatacttttcatctgcaagggtcttttgtcagtatcaataatttgtttcttaaagttattttcttatttggctgtag

upper sequence: LOC_Os10g27230.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA09G15980.2 (Glycine max), 5'ss of exon 8
GTTCAAACTCTCCTAAAAGGGTTGGAAAAAATAGCTGTTAGTGCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtataaatatgctatcactgtagtatttatttggtaaaattattttgaaaccatggacttctaagtactcaattatgctttcag------------
||||| |||||| ||||||| ||||||||||||||||  ||||| |||||||| |||||||| ||||| ||||| |||||||| || || |||| || || |      | ||  | |   |||  |||       || ||||| ||  | |  | | ||  ||   ||| ||  |||               
GTTCATACTCTCTTAAAAGGTTTGGAAAAAATAGCTGCAAGTGCAGACATTCCGATGTTGGTTTGTGGAGATTTTAATTCAGTTCCGGGAAGgtttg-atgacatctttttctttatgtaattatttttagttttttgttttgtaataaggatcatgtattta--taatgattattttgaacatcgttgcag

upper sequence: LOC_Os10g27230.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA19G39210.1 (Glycine max), 5'ss of exon 8
GTTCAAACTCTCCTAAAAGGGTTGGAAAAAATAGCTGTTAGTGCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtataaatatgctatcactgtag-tatttat--ttggtaaaattattttgaaaccatggact-tctaagtactcaa-ttatgctttcag----------
|| || |||||| | ||||| ||||| ||||| ||||  ||||| ||||||||||||||||| |||||||| || |||||| | || || |||| ||  ||  | |    | ||| | | || || |  |  | ||   | |||||  |  ||      | |  ||  | || ||||  | | |           
GTGCACACTCTCTTGAAAGGATTGGAGAAAATTGCTGCCAGTGCAGACATTCCAATGTTGGTTTGTGGGGACTTTAATTCAATTCCAGGAAGgtctgattactttttgattaactttggatacttttcatctgcaagggtcttttgtcagtatcattaatttgcgtcttaaagttattttcttatttggctgtag

upper sequence: LOC_Os10g27230.1 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv08s0007g07020.t01 (Vitis vinifera), 5'ss of exon 8
GTTCAAACTCTCCTAAAAGGGTTGGAAAAAATAGCTGTTAGTGCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtata--------aatatg------------ctatcactgtagtatt-tatttggtaaaa--ttattttgaaaccatggacttctaagtactcaattatgctt-tcag-------------------------
||||| |||||| ||||||| ||||||||||||||||  ||||| |||||||| ||| |||| ||||| ||||| |||||||| ||||| |||| ||| ||        |||||             || |  | || || || || ||  ||  |  || | |  ||   |||   |||||   |  | |||  |||| |  |                         
GTTCATACTCTCTTAAAAGGTTTGGAAAAAATAGCTGCCAGTGCAGACATTCCCATGCTGGTTTGTGGCGATTTTAATTCAGTTCCTGGAAGgtctgtctatgcactaaaatatagttgattgcttactgttccagtggtgttctagtttctagcactttgtgtgaaagttatgtttttctagaaatgccatttcgcttatttgaaggtaattttgaaccttattgcag

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|58593746|gb|CF992054.1|CF992054
EST:     GCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAG                         TTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA
genomic: GCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtataa ... atgctttcagTTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA
EST: gi|218491095|gb|FG965464.1|FG965464
EST:     GCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAG                         TTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA
genomic: GCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtataa ... atgctttcagTTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA
EST: gi|29613589|gb|CB618602.1|CB618602
EST:     CATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAG                         TTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA
genomic: CATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtataa ... atgctttcagTTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA
EST: gi|29627416|gb|CB632427.1|CB632427
EST:     GCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAG                         TTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA
genomic: GCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtataa ... atgctttcagTTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA
EST: gi|29676248|gb|CB672523.1|CB672523
EST:     CCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAG                         TTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA
genomic: CCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtataa ... atgctttcagTTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA
EST: gi|29630215|gb|CB635224.1|CB635224
EST:     GCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAG                         TTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA
genomic: GCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtataa ... atgctttcagTTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA
EST: gi|29623249|gb|CB628260.1|CB628260
EST:     GCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAG                         TTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA
genomic: GCGGACATTCCAATGTTGGTCTGTGGGGATTTCAATTCAGTCCCTGGGAGgtgtgtataa ... atgctttcagTTCTCCACATGGACTTCTTGCTATGGGCAAAGTTGATCAATTGCATCCAGA