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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAAAGATTGAAAGAAGCACAGAATATAAACAAATCACTTTCTGCACTTGGTGATGTCATATCCGCTCTTGCAACAAAGACCTCACATATACCCTTTAGgtatttaaatttgagtcctttatttaagttttattagtcttgtaacttaaattatgaccacttatagatagttgttttaaattacag

Basic information

species Zea mays
transcript GRMZM2G400223_T02
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G400223_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os12g42160.1 (Oryza sativa), 5'ss of exon 11
GAGAAAGATTGAAAGAAGCACAGAATATAAACAAATCACTTTCTGCACTTGGTGATGTCATATCCGCTCTTGCAACAAAGACCTCACATATACCCTTTAGgtatttaaatttgagtccttta--tttaagtttt-attagtcttgtaacttaaatt--atgaccacttatagata-gttgttttaaatt-acag
||||| |  |||||||||| || ||||| ||||| || |||||||||||||| ||||||||||| ||||||||||| |||| |   |||||||| || |||| | | ||||   ||||||||  | ||| |||| ||||||  |||    | |      || ||||| | | ||   ||||   ||||| ||||
GAGAACGGCTGAAAGAAGCTCAAAATATTAACAAGTCCCTTTCTGCACTTGGAGATGTCATATCTGCTCTTGCAACTAAGAGCCAGCATATACCGTTCAGgt-tgtgaattactgtcctttaagtctaatttttcattagtactgtcttatgagcccagtgcccactgacatatttattgtcccaaattgacag

upper sequence: GRMZM2G400223_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA08G18590.1 (Glycine max), 5'ss of exon 13
GAGAAAGATTGAAAGAAGCACAGAATATAAACAAATCACTTTCTGCACTTGGTGATGTCATATCCGCTCTTGCAACAAAGACCTCACATATACCCTTTAGgt-atttaaatttgagtcctttatttaagttttattagtcttgtaacttaaatt--atgacca-cttatagatagttgttttaaattacag---------------------
| || ||| |||| ||  |||| ||||| || |  || || ||||||||||||||||||||||| |||||||||||||| |  ||||| || || || |||| || | ||| | | |  ||   | | |||||   | ||    |   | || |  || |||| ||| | |     || |    |||  |                      
GTGATAGACTGAAGGAGACACAAAATATTAATAGGTCTCTCTCTGCACTTGGTGATGTCATATCAGCTCTTGCAACAAAAAGTTCACACATTCCTTTCAGgttatgtcaatat-aatttttagctcatgtttt--caatcccaaatgctgaaatgaatcaccatcttttggtctactggtcagtattgaaatttttgttcatcatgttgcag

upper sequence: GRMZM2G400223_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA15G40350.1 (Glycine max), 5'ss of exon 13
GAGAAAGATTGAAAGAAGCACAGAATATAAACAAATCACTTTCTGCACTTGGTGATGTCATATCCGCTCTTGCAACAAAGACCTCACATATACCCTTTAGgt-atttaaatttgagtcctttatttaagtttt-----attagtcttgtaacttaaattatgaccacttat--------agatagttgttttaaat--tacag
| || ||| | || ||  |||| ||||| || |  || || ||||||||||||||||||||||| |||||||||||||| |  ||||| || || || |||| || | ||  | |||  ||   | | |||||     |  | |  || ||  |   ||  | | | |  |        | ||  ||||| |  ||  | |||
GCGATAGACTAAAGGAGACACAAAATATTAATAGGTCTCTCTCTGCACTTGGTGATGTCATATCAGCTCTTGCAACAAAAAGTTCACACATTCCTTTCAGgttatgtcaacataagtt-ttagctcatgttttcgattacaaatgctgaaatatctttttggtctattggttggttttgaaatttttgttcttcatgctgcag

upper sequence: GRMZM2G400223_T01 (Zea mays), 5'ss of exon 10
lower sequence: AT1G72250.1 (Arabidopsis thaliana), 5'ss of exon 14
GAGAAAGATTGAAAGAAGCACAGAATATAAACAAATCACTTTCTGCACTTGGTGATGTCATATCCGCTCTTGCAACAAAGACCTCACATATACCCTTTAGgt--atttaa---atttgagtc-ctttatttaagttt--------tattagtcttgtaacttaaattatgacc-acttatagatag--ttgttttaaattacag
||||| |  |||| ||  | || || || ||||||||| | ||||| |||||||||||||||| ||||||||| |  || | ||| || || || || ||||  || | |   || |   |  || ||   ||| ||         |||  || | |||||| |  | || |   | ||  ||||   |    |    || |||
GAGAACGGCTGAAGGAGACTCAAAACATCAACAAATCATTATCTGCTCTTGGTGATGTCATATTCGCTCTTGCCAACAAAAGCTCTCACATTCCTTTCAGgtcaatatgatacatctatttttctctaaagaaggttacagtcaccatttttcatctaactttatgtttggcttgcatactgataagatcaaatacctttgcag

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|5566690|gb|AI881706.1|AI881706
EST:     GGTGATGTCATATCCGCTCTTGCAACGAAGACCTCACATATACCCTTTAG                         GAATTCGAAGCTAACACACTTGCTACAAGACTCATTAA
genomic: GGTGATGTCATATCCGCTCTTGCAACAAAGACCTCACATATACCCTTTAGgtatttaaat ... taaattacagGAATTCGAAGCTAACACACTTGCTACAAGACTCATTAA