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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACAAGCCCTAGCTAATGTATCTGCTTTGCTTCGTCCTGGAGGAGTTTTCATTGGGACAATGCCTGATGCTAATGTCATCATCAAAAGGCTTAGAGAAAgtaggtcactgttttcactggcgggcctatattttgattaattttggtctaactgtacttgcgataaagctacatgccttttttctcaaactttcctatcctcag

Basic information

species Oryza sativa
transcript LOC_Os08g08200.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g08200.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G042398_T01 (Zea mays), 5'ss of exon 8
AGACAAGCCCTAGCTAATGTATCTGCTTTGCTTCGTCCTGGAGGAGTTTTCATTGGGACAATGCCTGATGCTAATGTCATCATCAAAAGGCTTAGAGAAAgtaggtcactgttttcactggcgggcctat-attttgattaattttggtctaactgtacttgcgataaagctacatgccttttttctcaaactttc--ctatcctcag
||||||||| | || ||||| ||||| || ||||||||||||||  |||| |||||||||||||||||||| |||||||| |||||||||||| ||||| ||| || |||||   ||      | | | |    ||| |||| ||||   | |||||| ||||    |||||   || |   | | | ||   |||  ||||  ||||
AGACAAGCCTTGGCAAATGTGTCTGCATTACTTCGTCCTGGAGGCATTTTTATTGGGACAATGCCTGATGCCAATGTCATTATCAAAAGGCTTCGAGAATgtatgttactgtaaacaaccattgtcatcttgcattggttaactttg---tcactgtatttgctg-gaagctgtgtgacaagtatataaactcttctgctatggtcag

upper sequence: LOC_Os08g08200.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA06G41190.1 (Glycine max), 5'ss of exon 7
AGACAAGCCCTAGCTAATGTATCTGCTTTGCTTCGTCCTGGAGGAGTTTTCATTGGGACAATGCCTGATGCTAATGTCATCATCAAAAGGCTTAGAGAAAgtaggtcact-gttttcactggcgggcctatattttgattaattttggtctaactgtacttgcgataaagctacatgccttttttctcaaactttcctatcctcag
 | |||||  | |||||||| || ||||| ||||| || |||||  |||||||||| |||||||||||||| ||||| || ||||| | |||||||||| ||   || ||  | |||| |   |    |||  ||   |||| ||   | ||   ||   ||   |  |   ||| |  ||      | |       | ||     
CGGCAAGCATTGGCTAATGTGTCAGCTTTACTTCGCCCAGGAGGCATTTTCATTGGAACAATGCCTGATGCCAATGTGATAATCAAGAAGCTTAGAGAAGgtttttctctcatgttcaattctga--ttattattcttttaaattaaatttagtagttgatgatgtccaatgacacgaattgaactgcgatggcgtttttca----

upper sequence: LOC_Os08g08200.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA08G22390.1 (Glycine max), 5'ss of exon 7
AGACAAGCCCTAGCTAATGTATCTGCTTTGCTTCGTCCTGGAGGAGTTTTCATTGGGACAATGCCTGATGCTAATGTCATCATCAAAAGGCTTAGAGAAAgtaggtcac-tgttttcactggcg----ggcctatattttgatta-attttggtctaactg---tacttgcgataaagctacatgccttttttctcaaactttcctatcctcag-------------------------------------------------------------------
 | |||||  | || ||||| || |||||||| || || |||||  |||||||||| || ||||||||||| ||||| || ||||| | |||||||||| ||   ||   |   |||| |   |    |    ||| ||  |||      ||   || ||    ||   |    |||| | |||    |||     ||       | || |  |                                                                   
CGGCAAGCATTGGCCAATGTGTCAGCTTTGCTACGCCCAGGAGGCATTTTCATTGGAACTATGCCTGATGCCAATGTGATTATCAAGAAGCTTAGAGAAGgtttttcttgtacattcaataatgtaatgataaataattatattgtgcaatgcattagctaaaatatgagtatcaaagattcatatgctttaatataagtgggaatttcgttgggtatgtgtatgatagaccttttttgtcattcctgattagagatactattttcactgtgaatttgtag

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|58693212|gb|CK081899.1|CK081899
EST:     CATTGGGACAATGCCTGATGCTAATGTCATCATCAAAAGGCTTAGAGAAA                         CTGATGGCATGGAATTTGGGAACGGTGTTTACTGGATTAGTTTTGGCGAAG
genomic: CATTGGGACAATGCCTGATGCTAATGTCATCATCAAAAGGCTTAGAGAAAgtaggtcact ... ctatcctcagCTGATGGCATGGAATTTGGGAATGGTGTTTACTGGATTAGTTTTGGCGAAG
EST: gi|66916049|gb|CX102897.1|CX102897
EST:     CATTGGGACAATGCCTGATGCTAATGTCATCATCAAAAGGCTTAGAGAAA                         CTGATGGCATGGAATTTGGGAACGGTGTTTACTGGATTAGTTTTGGCGAAG
genomic: CATTGGGACAATGCCTGATGCTAATGTCATCATCAAAAGGCTTAGAGAAAgtaggtcact ... ctatcctcagCTGATGGCATGGAATTTGGGAATGGTGTTTACTGGATTAGTTTTGGCGAAG