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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGAGGGAGTAGGAGGTCTGGAAGAAGTGACTTTCCTTTATAGATTAACACCTGGTGCTTGCCCTAAAAGTTATGGTGTAAATGTTGCTCGATTGGCAGgtaattctcaagctaatgcacttgtttcttaatgtcttctgctctgaattcaaatgctctttttcctcgggccgtgttatgttgacacataataccatgcccatttgctgtcttcgctcttgatactcag

Basic information

species Zea mays
transcript GRMZM2G421541_T01
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G421541_T01 (Zea mays), 5'ss of exon 20
lower sequence: LOC_Os09g24220.1 (Oryza sativa), 5'ss of exon 20
GTCGAGGGAGTAGGAGGTCTGGAAGAAGTGACTTTCCTTTATAGATTAACACCTGGTGCTTGCCCTAAAAGTTATGGTGTAAATGTTGCTCGATTGGCAGgtaattctcaagctaatgcacttgtttcttaatgtcttctgctctgaattcaaatgctctttttcctcgggccgtgttatgttgacacataataccatgcccatttgctgtcttcgctcttgatactcag
  | |||||| ||||||| |||||||||| |||||||| || |  ||||| |||||| | ||||| ||||| |||||||||||||||||||||||||||||| |||  |||||||||    | | |     | | ||| | |||  |||||    ||   | |   | |||             |||  |   |  || | ||        |||   ||||||||  |||
AGCAAGGGAGAAGGAGGTTTGGAAGAAGTTACTTTCCTCTACAAGTTAACGCCTGGTTCATGCCCCAAAAGCTATGGTGTAAATGTTGCTCGATTGGCAGgttatttccaagctaatattttggct-----acggcttttactcaaaattctctagcaaatctaattgggg------------aacaggtgccaa-atactca------aacttgtatcttgatatccag

upper sequence: GRMZM2G421541_T01 (Zea mays), 5'ss of exon 20
lower sequence: AT4G02070.2 (Arabidopsis thaliana), 5'ss of exon 20
GTCGAGGGAGTAGGAGGTCTGGAAGAAGTGACTTTCCTTTATAGATTAACACCTGGTGCTTGCCCTAAAAGTTATGGTGTAAATGTTGCTCGATTGGCAGgtaattctcaagctaatgcacttgtttcttaatgtcttctgctctga-attcaaatgctctttttcctcgggccgtgttatgttgacacataataccatgcccatttgctgtcttcgctcttgatactcag
|  || ||| | || ||  | |||||||| || || || |||||||| || |||||||| || |||||||||||||| || || |||||||| || || |||||          | || | |   | ||  ||  | ||| ||| |  |  || | ||  |   || ||     || ||   || |  |   |||                                    
GGAGAAGGAATCGGTGGAGTAGAAGAAGTTACATTTCTCTATAGATTGACTCCTGGTGCATGTCCTAAAAGTTATGGAGTTAACGTTGCTCGGTTAGCTGgtaa------gaacactgaattctctactccatcacctctactcagttaaacagaagcagtcactcatcaaattgttttggttttaatctccatag-----------------------------------

upper sequence: GRMZM2G421541_T01 (Zea mays), 5'ss of exon 20
lower sequence: Vv07s0005g01370.t01 (Vitis vinifera), 5'ss of exon 20
GTCGAGGGAGTAGGAGGTCTGGAAGAAGTGACTTTCCTTTATAGATTAACACCTGGTGCTTGCCCTAAAAGTTATGGTGTAAATGTTGCTCGATTGGCAGgtaat-tctcaagctaatgc-acttgtttcttaatgtcttctgctctgaattcaaatgctctttttcctcgggccgtgttatgttgacacataataccatgcccatttgctgtcttcgc----tcttgatactcag-------------------------------------------------------------
|   ||||||| |||||  |||| ||||| ||||| ||||| || || |  |||||||| ||||||||||| ||||| || |||||||| ||  | || |||||  | ||   ||| ||  | || | ||||| ||         |   |    | |  |  ||||       ||   || || | |  | |  |   ||| |  |||  |   |  ||    || ||     |||                                                             
GGAAAGGGAGTTGGAGGCGTGGAGGAAGTAACTTTTCTTTACAGGTTGAGGCCTGGTGCATGCCCTAAAAGCTATGGCGTCAATGTTGCACGGCTAGCTGgtaaggtttctttctattgttatttttctcttattgaggaacttacattagcagactattaatttttgctaacccaatttgtgataaatcttcctgatatggctgtttaattcatgtgcctaatcatgggctacagtcattgttgtcttttttactaatatatgagatttcctgtgtcttactggtacacctttcag

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|78105701|gb|DV524119.1|DV524119
EST:     ACCTGGTGCTTGCCCTAAAAGTTATGGTGTAAATGTTGCTCGATTGGCAG                         GAATTCCTACTAAATTGCTTCAAAGAGCGAATGAAAAGTCGAGTGAATTTG
genomic: ACCTGGTGCTTGCCCTAAAAGTTATGGTGTAAATGTTGCTCGATTGGCAGgtaattctca ... tgatactcagGAATTCCTACTAAATTGCTTCAAAGAGCGAATGAAAAGTCGAGTGAATTTG