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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCAGAGAGTCATCGGTGAACCTGTGGTTTCTGGACTAGTGCTTGATGATTCTTGGCTTTGGGATCCTGACTTCACGATTGCTTCAAAgtaaatgggaaaacaactcagtagtaatgcttttcgaattataaattatttctatttcacacgatgcttctag

Basic information

species Zea mays
transcript GRMZM2G020002_T03
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G020002_T03 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os01g59340.1 (Oryza sativa), 5'ss of exon 10
GGCAGAGAGTCATCGGTGAACCTGTGGTTTCTGGACTAGTGCTTGATGATTCTTGGCTTTGGGATCCTGACTTCACGATTGCTTCAAAgtaaatgggaaaacaactcagtagtaatgcttttcgaattataaattatttctatttcacacgatgcttctag
||||||||||||| |||||||||||||||||||| ||||| |||||||||||||||||||||||||| ||||||| ||| ||||||||||||||   |  |||| |     |   || || |  |||| |   || ||| ||| ||| |  |   ||||||
GGCAGAGAGTCATTGGTGAACCTGTGGTTTCTGGGCTAGTACTTGATGATTCTTGGCTTTGGGATCCGGACTTCATGATAGCTTCAAAgtaaataaaagcacaaatttaatgctttgtttatgcaattgtggtttcttt-tatctcatatcacatttctag

upper sequence: GRMZM2G020002_T03 (Zea mays), 5'ss of exon 7
lower sequence: AT5G12200.1 (Arabidopsis thaliana), 5'ss of exon 7
GGCAGAGAGTCATCGGTGAACCTGTGGTTTCTGGACTAGTGCTTGATGATTCTTGGCTTTGGGATCCTGACTTCACGATTGCTTCAAAgtaaatgggaaaacaactcagt--agtaatgcttttcgaattat------aaattatttctatttcacacgatgcttctag
| ||||  || || || || ||||| || |||||| || | |||||||||  |||||||||||||||||||||||| ||||| || ||||||         ||  || ||  |  ||    || | | ||||      | ||| |     |||  | | ||  |||   
GACAGAAGGTTATTGGAGAGCCTGTTGTGTCTGGATTAATCCTTGATGATCATTGGCTTTGGGATCCTGACTTCACAATTGCGTCCAAgtaataaatccttcagttctgttaatcaaatgattcccatttattctttcagattttcaaagtttttctcaatatttcag-

upper sequence: GRMZM2G020002_T03 (Zea mays), 5'ss of exon 7
lower sequence: Vv06s0009g02790.t01 (Vitis vinifera), 5'ss of exon 7
GGCAGAGAGTCATCGGTGAACCTGTGGTTTCTGGACTAGTGCTTGATGATTCTTGGCTTTGGGATCCTGACTTCACGATTGCTTCAAAgtaa-atgggaaaacaactcagtagtaatgcttttcgaattataaatta---tttctatttcacacgatgcttctag----------------
| ||||| || || || || || || ||||||||  |||| |||||||||||| |||| ||||||||||||||||  |  ||  ||||| || ||   | |     ||  |  |  |  | |    | | |  || |   ||| ||         |   || |                  
GACAGAGGGTTATTGGAGAGCCAGTAGTTTCTGGGTTAGTCCTTGATGATTCTGGGCTCTGGGATCCTGACTTCATCAACGCAGCAAAgcaagatctcatactccttccattttcttcttctcttcactttctatcacattttttaacctttgtcaacattatgatcttttcatgtttcag

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|18659090|gb|BM500149.1|BM500149
EST:     GTGCTTGATGATTCTTGGCTTTGGGATCCTGACTTCACGATTGCTTCAAA                         GTACGTGATGAGTCCTCCAATCCGGGAAGCAGGGCATGGTAAAGCACTCCA
genomic: GTGCTTGATGATTCTTGGCTTTGGGATCCTGACTTCACGATTGCTTCAAAgtaaatggga ... atgcttctagGTACGTGATGAGTCCTCCAATCCGGGAAGCAGGGCATGGTAAAGCACTCCA
EST: gi|31355355|gb|CD439712.1|CD439712
EST:     GTGCTTGATGATTCTTGGCTTTGGGATCCTGACTTCACAATTGCTTCAAA                         GTACGTGATGAGTCCTCCAATCCGGGAAGCAGGGCATGGTAAAGCACTCCA
genomic: GTGCTTGATGATTCTTGGCTTTGGGATCCTGACTTCACGATTGCTTCAAAgtaaatggga ... atgcttctagGTACGTGATGAGTCCTCCAATCCGGGAAGCAGGGCATGGTAAAGCACTCCA