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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGAGCTGGACAAACCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAGgtatctatcgaaactcgcgaactcaccgctgagagctgagagacgagagcgccgtgcgccggcgaccactccggtccccggcggccacacctcccacctg...

Basic information

species Oryza sativa
transcript LOC_Os02g43594.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g43594.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G074173_T01 (Zea mays), 5'ss of exon 3
TTGAGCTGGACAAACCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAGgtatctatcga-aactcgcgaactcac-cgctgagagctgagagacgagagcgccgtgcgccggcgaccactccggtccccggcggccacacctcccacctg------------------------------------------------------
|||||||||| || ||||||||||||||||||||||||||||||||||||||||| || || |||||||||||   || |     ||  || | || |  | ||   ||      |     |||   |  ||  ||    |  |  |  || || |||      ||  |   |                                                      
TTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCACCACGTCGCATTCAAGgtccgtagcttcggctatcgcattcgcgtgatgttcgcctcagaatttccgcgttttttgcttgctggaaaccaag--ccaggtggcttggtgtctgaggggagaagaaaaactaaactaggtctggttggtgaaatttgcccgattcactttcag

upper sequence: LOC_Os02g43594.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G171406_T06 (Zea mays), 5'ss of exon 2
TTGAGCTGGACAAACCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAGgt----atctatcgaaactcgcgaactcaccgctgagagctgagagacgagagcgccgtgcgccggcgaccactccggtccccggcggccacacctcccacctg--------------------------------
|||||||||| || ||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||     |||  |    | || ||| |   |      | ||  | |    |  ||| |     ||        |         |  |   | |   |    ||                                 
TTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAGgtccatgtcttccctgtcccgtgaagttcacctcagaatctccgcgttttgctcgctgaaaatcgaaccaggtttgatgttgagatgagaagaaaactagactaggtctggtcaaatttgccccatttattttcag
















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|88728659|gb|CI752169.1|CI752169
EST:     ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAG                         GTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATC
genomic: ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAGgtatctatcg ... ttccattcagGTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATC
EST: gi|88401755|gb|CI591082.1|CI591082
EST:     ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAG                         GTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATC
genomic: ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAGgtatctatcg ... ttccattcagGTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATC
EST: gi|88389102|gb|CI595336.1|CI595336
EST:     ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAG                         GTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATC
genomic: ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAGgtatctatcg ... ttccattcagGTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATC
EST: gi|88405086|gb|CI685534.1|CI685534
EST:     ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAG                         GTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATC
genomic: ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAGgtatctatcg ... ttccattcagGTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATC
EST: gi|88581198|gb|CI698173.1|CI698173
EST:     ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAG                         GTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATC
genomic: ATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAGgtatctatcg ... ttccattcagGTCAAAACAACATCACCAAGGAAGTATTTCGTCCGGCCGAACGCGAACATC