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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTCGTGAAAATCCTCCGCAGgtaatttgattaattttcagtaacttgccaaaagtaccagtacacatttctatgcaagaagataaaagttttgtattaatatgcag

Basic information

species Zea mays
transcript GRMZM2G027756_T01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G027756_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os07g32400.2 (Oryza sativa), 5'ss of exon 9
AGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTCGTGAAAATCCTCCGCAGgtaatttgattaattttcagtaacttgccaaaagtaccagtacacatttctatgcaagaagataaaagttttgtattaatatgcag------------------------
|||||| ||||| ||||||||||| ||||||||||||||| |||||||||| ||||||||||||||||||||||| |||||||||||||||||||| ||||| | ||| ||||| |||| |  ||   |   | | |       || |  || ||||     |     |  |  | ||  ||  ||                        
AGGTATAACTGCTATTGAAATGGCAAAAGGTGAACCCCCTTTGGCAGATATCCATCCCATGAGAGTTCTTTTCATGATACCTCGTGAAAATCCTCCTCAGgtcacttggttaatcttcaatccctgttctttaatgcttaattgcaata-tacgcaaagcatttgctttgatccactagaatatagtatattaatttttaaaaaatgcag

upper sequence: GRMZM2G027756_T02 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA12G27300.2 (Glycine max), 5'ss of exon 10
AGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTCGTGAAAATCCTCCGCAGgtaatttgatta---attttcag--taact--tgccaaaagtaccagtacacattt-ctatgcaagaa---gataaaagttttgtattaatatgcag----------------------------
 || || ||||| ||||| ||||| ||||| || || || || || ||| ||||||| |||||||| |||||||||||||| || || ||||| || || ||  | || ||    | | ||||  ||| |  ||    ||||  ||    |  ||  ||    ||      ||| | | ||||     | | |  ||                            
GGGCATTACTGCGATTGAGATGGCAAAAGGGGAGCCTCCACTTGCTGATCTTCATCCAATGAGAGTGCTTTTCATCATACCCCGAGAGAATCCACCACAAgttctgtgtttctataatatcagattaattgatgtttcaagttgcaaagtattttgacttcataaagttttgatgagattttttccccagt-taaagagttaacatttgatgatgttttgggcag

upper sequence: GRMZM2G027756_T02 (Zea mays), 5'ss of exon 6
lower sequence: AT3G15220.1 (Arabidopsis thaliana), 5'ss of exon 10
AGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTCGTGAAAATCCTCCGCAGgtaatttgattaattttcagt---aacttgccaaaagtaccagtacacatttctatgcaagaagataaaagttttgtattaatatgcag
 || || || |  ||||| ||||| ||||| ||||| || || || ||  |||||||||||||||| ||||| ||||| ||||| |||| ||| || ||||   ||| |   ||||||| |   ||| ||  ||||||   | |   || |    |          | || |||    ||  |  ||||
CGGAATAACAGTTATTGAGATGGCAAAAGGAGAACCTCCCCTAGCTGACCTTCATCCCATGAGAGTGCTTTTTATCATTCCTCGAGAAACTCCACCACAGg---tttcacatattttcattttaaacatgataaaagttatactggtcactgtgctttgcctcagcagaattttaccttttctgggcag

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|76282537|gb|DV022105.1|DV022105
EST:     TTCATCCCATGAGAGTTCTTTTCATCATACCTCGTGAAAATCCTCCGCAG                         CTTGATGAGCATTTCTCGAAACCAATGAAAGAGTTTGTCTCACTATGTTTA
genomic: TTCATCCCATGAGAGTTCTTTTCATCATACCTCGTGAAAATCCTCCGCAGgtaatttgat ... taatatgcagCTTGATGAGCATTTCTCGAAACCAATGAAAGAGTTTGTCTCACTATGTTTA