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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATACAAGGTCCACTCACACAACAGGAATGGTCTTTGCGCAGTTGCATTTATGGATGATCACTATCCTGTACGAAGTGCATTTTCTCTTCTGAATAAGgtatgagcctttgttcttgacattcctgtattgcatatccttgtatttgacctaggatcagattcacaagcaataagggattgtctccttgctattctca...

Basic information

species Oryza sativa
transcript LOC_Os01g64650.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g64650.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G446711_T01 (Zea mays), 5'ss of exon 2
AATACAAGGTCCACTCACACAACAGGAATGGTCTTTGCGCAGTTGCATTTATGGATGATCACTATCCTGTACGAAGTGCATTTTCTCTTCTGAATAAGgtatgagcctttgttcttgacattcctgtattgcatatccttgtatttgacctaggatcag-attcacaagcaataagggattgtctccttgctattctca
|||||||||||||||| ||||| || ||||| ||||| ||||||||||| ||||||||||| ||||||||||  ||||||||||||||||||||| |||||  |  | || | |   | | |||    |  | |  | ||   ||| | ||  | | |  | |   ||||  ||     |   ||  |     |  |||
AATACAAGGTCCACTCCCACAATAGAAATGGGCTTTGTGCAGTTGCATTCATGGATGATCATTATCCTGTACAGAGTGCATTTTCTCTTCTGAATCAGgtaccattcgttatccactagactcccacttgcctttgcttttggtttaagctcaggttaccaattgtaagctgtagccagtca-cttttcatcctgttca

upper sequence: LOC_Os01g64650.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G178244_T01 (Zea mays), 5'ss of exon 2
AATACAAGGTCCACTCACACAACAGGAATGGTCTTTGCGCAGTTGCATTTATGGATGATCACTATCCTGTACGAAGTGCATTTTCTCTTCTGAATAAGgtatgagcctttgttcttgacattcctgtattgcatatccttgtatttgacctaggatcag-attcacaagcaataagggattgtctccttgctattctca
|||| ||||| ||||| |||||||| ||||| ||||| || || ||||||||||||||||||||||||||||||||||||||||||||||||||| |||||    || |  ||| ||| |||||   ||  | |  | ||   ||  |  |  | | |  | |   |||   ||     |  | ||    | | |    
AATATAAGGTTCACTCCCACAACAGAAATGGGCTTTGTGCGGTGGCATTTATGGATGATCACTATCCTGTACGAAGTGCATTTTCTCTTCTGAATCAGgtaccgaccatgattcctgagattcccacatgtctttgcttttggttgaagttgagtttaccaattgtaagttgtagccagtcatttctcacccagttct-

upper sequence: LOC_Os01g64650.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G387076_T02 (Zea mays), 5'ss of exon 3
AATACAAGGTCCACTCACACAACAGGAATGGTCTTTGCGCAGTTGCATTTATGGATGATCACTATCCTGTACGAAGTGCATTTTCTCTTCTGAATAAGgtatgagcctttgttcttgacattcctgtattgcatatccttgtatttga--cctaggatcagattcacaagcaataagggattg-tctccttgctattctca
|||||||||||||||| ||||| || ||||| ||||| || |||||||| ||||||||||| ||||| ||||| ||||||||||||||||||||| |||||  |  | || | |   | | |||    |  | | | ||| |  || |  || ||| |   | |   ||||  ||     |   | | | | || |||   
AATACAAGGTCCACTCCCACAATAGAAATGGGCTTTGTGCGGTTGCATTCATGGATGATCATTATCCGGTACGGAGTGCATTTTCTCTTCTGAATCAGgtaccaatcgttatcccctagactcccacttgccttttgcttttggtttaagcccaggttaccaattgtaagctgtagccagtcacttttcattctgttc---

upper sequence: LOC_Os01g64650.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA13G19950.1 (Glycine max), 5'ss of exon 2
AATACAAGGTCCACTCACACAACAGGAATGGTCTTTGCGCAGTTGCATTTATGGATGATCACTATCCTGTACGAAGTGCATTTTCTCTTCTGAATAAGgtatgagcctttgttcttgacattcctgtattgcatatccttgtatttgacctaggatcagattcacaagcaataagggattgtctccttgctattctca---
| |||||||| ||| || ||||||| ||||||||||||||  | | ||||||||||||||| || ||  | || ||||| ||||||||||| ||  ||||  || |     |   ||       | |  |||   ||| | |    ||| |   ||  | | |    | ||    |||   | |  ||   |    ||   
AGTACAAGGTGCACACATACAACAGAAATGGTCTTTGCGCGTTGGGATTTATGGATGATCATTACCCGATTCGGAGTGCGTTTTCTCTTCTCAACCAGgtgaga-ctcagatcactgttggatttttgctgct--tccgtattcaagacatgttattcgttgctttggaaaattaggaagatattgtttgaaggtgcatga

upper sequence: LOC_Os01g64650.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA09G13840.1 (Glycine max), 5'ss of exon 2
AATACAAGGTCCACTCACACAACAGGAATGGTCTTTGCGCAGTTGCATTTATGGATGATCACTATCCTGTACGAAGTGCATTTTCTCTTCTGAATAAGgtatgagcc------tttgttcttga--cattcctgtattgcatatccttgtatttgacctaggatcagattcacaag--caataagggattgtctccttgctattctca
| |||||||| ||| || ||||||||||||||||||||||  | | ||||||||||||||| || ||  | || ||||| ||||||||||| ||| ||||  ||  |          || |||   || | || ||||| ||||   | |   ||   |    |    | |       | |||||| | | | | | |          
AGTACAAGGTGCACACATACAACAGGAATGGTCTTTGCGCGTTGGGATTTATGGATGATCATTACCCGATTCGGAGTGCGTTTTCTCTTCTCAATCAGgtgagactcagataaccgtttattggttcagtgctatattgtatatttgtattcatggaattttgttgcttcctttgtgtctataaggaacttttttcat----------

upper sequence: LOC_Os01g64650.1 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv11s0206g00130.t01 (Vitis vinifera), 5'ss of exon 2
AATACAAGGTCCACTCACACAACAGGAATGGTCTTTGCGCAGTTGCATTTATGGATGATCACTATCCTGTACGAAGTGCATTTTCTCTTCTGAATAAGgtatgagcctttgttcttgacattcctgtattgcatatccttgtatttgacctaggatcagattcacaagcaataagggattgtctccttgctattctca---
|||| || || || ||  ||||||| ||||||||||| ||| | |  ||||||||||| ||||||||||| ||||| ||||||||  | || ||  |||||  | ||  | ||  || | || |||| ||   | |  |   |    |  |  |||   ||| |   |  |||    |||   |   |  ||     |   
AATATAAAGTGCATTCTTACAACAGAAATGGTCTTTGTGCACTGGGTTTTATGGATGACCACTATCCTGTTCGAAGCGCATTTTCCTTGCTCAACCAGgta-aacccaatttttatggctttactgtctttgtttttttcaaaagaaatttcagat--aattgatctggcatactttatttcttttgttttaagtcaacca

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|218482998|gb|FG956126.1|FG956126
EST:     TTATGGATGATCACTATCCTGTACGAAGTGCATTTTCTCTTCTGAATAAG                         GTACTTGACGAATACCAGAAGGCTTTCGGGGACTCTTGGAAAGCTGCTACA
genomic: TTATGGATGATCACTATCCTGTACGAAGTGCATTTTCTCTTCTGAATAAGgtatgagcct ... ttttatgaagGTACTTGACGAATACCAGAAGGCTTTCGGGGACTCTTGGAAAGCTGCTACA
EST: gi|4879970|gb|AU064269.1|AU064269
EST:     TATGGATGATCACTATCCTGTACGA-GTGCAATTTTCTCTTCTGAATAAG                         GTACTTGACGAATACCAGAAGGTTTTCGGGGACT
genomic: TATGGATGATCACTATCCTGTACGAAGTGCA-TTTTCTCTTCTGAATAAGgtatgagcct ... ttttatgaagGTACTTGACGAATACCAGAAGGCTTTCGGGGACT
EST: gi|27578119|gb|CB000814.1|CB000814
EST:     TTATGGATGATCACTATCCTGTACGAAGTGCATTTTCTCTTCTGAATAAG                         GTACTTGACGAATACCAGAAGGCTTTCGGGGACTCTTGGAAAGCTGCTACA
genomic: TTATGGATGATCACTATCCTGTACGAAGTGCATTTTCTCTTCTGAATAAGgtatgagcct ... ttttatgaagGTACTTGACGAATACCAGAAGGCTTTCGGGGACTCTTGGAAAGCTGCTACA