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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTGgtcagtcgtataagcattttctaattgtttgagattcttttcttaacaactgctaaaatttgtaaccttttcag

Basic information

species Oryza sativa
transcript LOC_Os01g56580.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G116086_T01 (Zea mays), 5'ss of exon 5
TGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTGgtcagtc-------gtataagcattttctaattg--tttgagattcttttcttaac----aactgctaaaatttgtaaccttttcag
||||||||| || ||||||||| |||| |||||||| |||||||| || || || || |||||||||||||| |||         |||| ||||  |  |||||  | |||| |  | ||  | |     ||    |||   ||  |||  || |||
TGCTCTGAACGGGTGTTATGGTGTACCATGGGTTCATTACAAAGGTCGACAAGGAGATTATTATGTTCTGgttagttcttataaatatatgcatagttgaattgaatctgagttaatattactgaagttaaagaaataagcattacaactattccag

upper sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 5
TGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTGgtcag---tcgtataagcattttctaattgtttgagattcttttcttaacaactgctaaaatttg--taacct-tttcag
  |||||||||| |||||||| || ||||||||||| ||||| || ||||| || || |  ||  || |||| ||   | || | | | ||  |  ||      |  ||  |||  |      ||   |||       ||  | ||||||
CACTCTGAATGGCTGTTATGGCATTCCCTGGGTTCATTACAAGGGTCGGCAAGGAGATTTCTACATTTTGgtgagatatggtttgaactttaccatatcagcatatgttgatttgctctttgttgtctaaaggaaaacaatatatttcag
















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|29629024|gb|CB634035.1|CB634035
EST:     GTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTG                         GTAATGGACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGG
genomic: GTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTGgtcagtcgta ... accttttcagGTAATGGACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGG
EST: gi|29623307|gb|CB628318.1|CB628318
EST:     GTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTG                         GTAATGGACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGG
genomic: GTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTGgtcagtcgta ... accttttcagGTAATGGACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGG
EST: gi|58661787|gb|CK050467.1|CK050467
EST:     GTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTG                         GTAATGGACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGG
genomic: GTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTGgtcagtcgta ... accttttcagGTAATGGACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGG