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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacacctctttctttgtccggcgcatctcgaagccccgagcctccgtgccgtctgccctgacccccgtgtcgtcccgtcgcagATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGCCCTGGTCCTGGACCTGGCCCCCCCCGCCCGCTCCGCGGCTTCGTGAGAC

Basic information

species Zea mays
transcript GRMZM2G102475_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G102475_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g49520.1 (Oryza sativa), 3'ss of exon 1
gtacacctctttctttgtccggcgcatctcgaagccccgagcctccgtgccgtctgccctgacccccgtgtcgtcccgt-cgcagATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGCCCTGGTCCTGGACCTGGCCCCCCCCGCCCGCTCCGCGGCTTCGTGAGAC--
||     ||| ||  | ||   | |  ||   ||       || || ||   || || | || | ||   ||  ||||| ||||||||| ||||||||| || |||||||| ||||| ||||||||||| |||| | |||   | ||||| |||   |||||||| || ||||| |||   ||||  
gtcggtttctctccctctctccctcccctgagag------accaccctgtactcagcac-gatctcc---tctccccgtgcgcagATCAGCGAGCGCCTCCGAGACCCCCGCGGCCTCCGCCGCGGCGCGCCCGCCGCTG---CAGGACCCGGCGGGCCCCGCCCACTTCGCGGATTCCCTAGACCA
















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|94478087|gb|EB707045.1|EB707045
EST:     CTGAGGACATCCGCCGCGAGCTCCAGGAGCTCCAGCGCCAGCACCGCGAG                         ATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGC
genomic: CTGAGGACATCCGCCGCGAGCTCCAGGAGCTCCAGCGCCAGCACCGCGAGgtacacctct ... cccgtcgcagATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGC
EST: gi|148955907|gb|EC901617.2|EC901617
EST:     CTGAGGACATCCGCCGCGAGCTCCAGGAGCTCCAGCGCCAGCACCGCGAG                         ATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGC
genomic: CTGAGGACATCCGCCGCGAGCTCCAGGAGCTCCAGCGCCAGCACCGCGAGgtacacctct ... cccgtcgcagATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGC
EST: gi|148953283|gb|EE152769.2|EE152769
EST:     CTGAGGACATCCGCCGCGAGCTCCAGGAGCTCCAGCGCCAGCACCGCGAG                         ATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGC
genomic: CTGAGGACATCCGCCGCGAGCTCCAGGAGCTCCAGCGCCAGCACCGCGAGgtacacctct ... cccgtcgcagATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGC
EST: gi|149026687|gb|EE046096.2|EE046096
EST:     CTGAGGACATCCGCCGCGAGCTCCAGGAGCTCCAGCGCCAGCACCGCGAG                         ATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGC
genomic: CTGAGGACATCCGCCGCGAGCTCCAGGAGCTCCAGCGCCAGCACCGCGAGgtacacctct ... cccgtcgcagATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGC
EST: gi|93013768|gb|EB639288.1|EB639288
EST:     CTGAGGACATCCGCCGCGAGCTCCAGGAGCTCCAGCGCCAGCACCGCGAG                         ATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGC
genomic: CTGAGGACATCCGCCGCGAGCTCCAGGAGCTCCAGCGCCAGCACCGCGAGgtacacctct ... cccgtcgcagATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGC
EST: gi|149045935|gb|EE047933.2|EE047933
EST:     CTGAGGACATCCGCCGCGAGCTCCAGGAGCTCCAGCGCCAGCACCGCGAG                         ATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGC
genomic: CTGAGGACATCCGCCGCGAGCTCCAGGAGCTCCAGCGCCAGCACCGCGAGgtacacctct ... cccgtcgcagATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgaagccccgagcctccgtgccgtctgccctgacccccgtgtcgtcccgtcgcagATCACCGAGCGCCTGCGCGACCCCCGTGGCCTTCGCCGCGGCGCCCCCGGCCCTGGTCCTGGACCTGGCCCCCCCCGCCCGCTCCGCGGCTTCGTGAGAC
                           ccctgac  putative branch site (score: 3)
                                         tcgtccc  putative PPT