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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcagcgcccgcccgggtccctcttcccgatctgtgccgttcgcgttagtggtggagccaaggtttccgggatctattcggagggttccctgttcgtgcgggcgggctaagcggttgggttctgtgcgagtccctgaaaccagtggtcgacttcgtggtctcagGCGGCGTCAGGCGCGGTTGCGTGCCAACTGATGGACGCGGCGCATCCCGGCGCCGTGCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGACA

Basic information

species Zea mays
transcript GRMZM2G163409_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G163409_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g35580.1 (Oryza sativa), 3'ss of exon 1
gtaagcagcgcccgcccgggtccctcttcccgatctgtgccgttcgcgttagtggtggagccaaggtttccgggatctattcggagggttccctgttcgtgcgggcgggctaagcggttgggttctgtgcgagtccctgaaaccagtggtcgacttcgtggtctcagGCGGCGTCAGGCGCGGTTGCGTGCCAACTGATGGACGCGGCGCATCCCGGCGCCGTGCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGACA
||||   |||| |  ||   |||| |||   |   | ||   |||| ||| || ||       |  | |    |  |    ||  |  ||   | |||  |      |     ||| || | ||      | ||              || |  ||||||     |||| ||||| || ||||| |||||||| ||||||||||||||||| || || || |||||||||||||||||||||||||||||||||||||||||||| |
gtaaatcgcgctcttcc---tccccctt---gggttttg--attcg-gttggttgtttgttggatttcttgatgcgcggggcgtggattttttttttctcggttcttgatgtggcgatttgattt-----gggt--------------gtgggtttcgtg----tagGCTGCGTCGGGGGCGGTGGCGTGCCAGCTGATGGACGCGGCGCACCCGGGGGCGGTGCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGAGA

upper sequence: GRMZM2G163409_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA01G39720.1 (Glycine max), 3'ss of exon 1
gtaagcagcgcccgcccgggtccctcttcccgatctgtgccgttcgcgttagtggtggagccaaggtttccgggatctattcggagggttccctgttcgtgcgggcgggctaagcggttgggttctgtgcgagtccctgaaaccagtggtcgacttcgtggtctcagGCGGCGTCAGGCGCGGTTGCGTGCCAACTGATGGACGCGGCGCATCCCGGCGCCGTGCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGACA
                                                                | | |   |   |||||        || |  ||   |        |  | || |||  ||||       ||    |      |||    | |  |  ||||||||    || |||||||||   ||||| ||  | || || || ||||| ||   |||||| |||||||||||||| |||||||||||||  ||||| || |
----------------------------------------------------------------gttatttcgatcctatt--------tctccatttaggtttaatttccgatcg-ttgatttcttactagatcttctattttcttggat--cgttatactctcagGCATGTTCCGGCGCGGTTCACTGCCAGCTTCTCGATGCCGCTCATCCAGGGATCGTGCCTATGCACAAGGTCAATTTCGACGCCAAGAGCGAGTATGAGA

upper sequence: GRMZM2G163409_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA11G05560.1 (Glycine max), 3'ss of exon 1
gtaagcagcgcccgcccgggtccctcttcccgatctgtgccgttcgcgttagtggtggagccaaggtttccgggatctattcggagggttccctgttcgtgcgggcgggctaagcggttgggttctgtgcgagtccctgaaaccagtggtcgacttcgtggtctcagGCGGCGTCAGGCGCGGTTGCGTGCCAACTGATGGACGCGGCGCATCCCGGCGCCGTGCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGACA
                                             |  ||| |  | || || |  | |||   |   ||||     | |    ||| |||        |  | || |  | ||   | |  | || |  |     | | |  | |  |  | ||||||    || ||||| |||   || || ||  | || || || ||||| ||   |||||| |||||||||||||| |||||||||||||  |||||||| |
---------------------------------------------gttttattt-tcgatcctatttctccatcaa--attcaatcaggtttaggtttgtgtttaatttccgatcgat--gatttcttactggaccttctattttcttg-catcgttatactttcagGCTTGTTCCGGCGCCGTTCATTGTCAGCTTCTCGATGCCGCTCATCCAGGGATCGTGCCTATGCACAAGGTCAATTTCGACGCCAAGAGCGAGTACGAGA

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|26558995|gb|CA831230.1|CA831230
EST:     CGCGTGGGATCAACACTACGCTGCACCTCGGCCTCTCCAAGGTGGAGGAG                         GCGGCGTCAGGCGCGGTTGCGTGCCAACTGATGGACGCGGCGCATCCCGGC
genomic: CGCGT-GGATCAACACTACGCTGCAGCTCGGCCTCTCCAAGGTGGAGGAGgtaagcagcg ... gtggtctcagGCGGCGTCAGGCGCGGTTGCGTGCCAACTGATGGACGCGGCGCATCCCGGC