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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGATGATGAATTTAATGGCAAAGTATCTGACTTTGGATTGGCTAAACTTTTGGGATCAGACAAAAGCCACATTACTACTAGAGTGATGGGAACATTTGGgtattattcttttttctaacccatacctgctcatttgctttgtgtctttacaatgacttatagagtttaactttcctcatccatttttcttgcttcag

Basic information

species Zea mays
transcript GRMZM2G017386_T03
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017386_T03 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os01g44110.1 (Oryza sativa), 5'ss of exon 6
TTGATGATGAATTTAATGGCAAAGTATCTGACTTTGGATTGGCTAAACTTTTGGGATCAGACAAAAGCCACATTACTACTAGAGTGATGGGAACATTTGGgtattattctttttt--ctaacccatacctg--ctcatttgctttgtgtctttacaatgacttatagagtttaactttcctcatccatttttcttgcttcag
||||||| |||||||||||||| || ||||||||||||||||| || |||||||| || || ||||||||||||||||||||||||||||||||||||||||||| | || |  |  ||| ||  ||  ||  ||||||||| |  | | ||| | ||   | |  ||||  ||   | |||||||||| |||||| || ||
TTGATGAGGAATTTAATGGCAAGGTCTCTGACTTTGGATTGGCCAAGCTTTTGGGGTCTGATAAAAGCCACATTACTACTAGAGTGATGGGAACATTTGGgtattttcctctgctagctacccattatttgtactcatttgcatcctttgtttgccatatttcaaggagtacaataattctcatccattcttcttgatttag

upper sequence: GRMZM2G017386_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA08G42170.2 (Glycine max), 5'ss of exon 4
TTGATGATGAATTTAATGGCAAAGTATCTGACTTTGGATTGGCTAAACTTTTGGGATCAGACAAAAGCCACATTACTACTAGAGTGATGGGAACATTTGGgtattattcttttttctaacccatacctgctcatttgctttgtgtctttacaatgacttatagagtttaactttcctcatccatttttcttgcttcag
|||||  ||| || ||||  || || ||||||||||| ||||| ||||||||||  ||||   |||| ||||||||||||||||| ||||||||||||||||||      | ||||     |     |    ||||  |||      || || | |    ||||   | |||    |    | | || |    |||||
TTGATACTGATTTCAATGCAAAGGTTTCTGACTTTGGTTTGGCCAAACTTTTGGATTCAGGAGAAAGTCACATTACTACTAGAGTAATGGGAACATTTGGgtatgcagaatgtttcagtatctactatatagattttatttaaaggattgcattaa----tagaaacttactcatgttggacctgttcccaatttcag

upper sequence: GRMZM2G017386_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA14G03290.1 (Glycine max), 5'ss of exon 4
TTGATGATGAATTTAATGGCAAAGTATCTGACTTTGGATTGGCTAAACTTTTGGGATCAGACAAAAGCCACATTACTACTAGAGTGATGGGAACATTTGGgtat-tattcttttttctaacccatacctgctcatttgctttgtgtctttacaatgacttatagagtttaactttcctcatccatttttcttgcttcag
||||||||||||| ||||  || || ||||| ||||| ||||| ||||||||||  |||| | |||| ||||| || |||||||| |||||||| |||||||||  |     |||  || | | | |||  |  | | |||   |  |||  |    |   |||    | |||||  |  |  ||||            
TTGATGATGAATTCAATGCAAAGGTTTCTGATTTTGGTTTGGCCAAACTTTTGGATTCAGGCGAAAGTCACATAACCACTAGAGTAATGGGAACGTTTGGgtatacagaaaatttattatctctttccttattttatacttaaaggatttgta----cacttaggaactcacttttgttttggatttcag---------

upper sequence: GRMZM2G017386_T03 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA18G12830.1 (Glycine max), 5'ss of exon 4
TTGATGATGAATTTAATGGCAAAGTATCTGACTTTGGATTGGCTAAACTTTTGGGATCAGACAAAAGCCACATTACTACTAGAGTGATGGGAACATTTGGgtattattcttttttctaaccca--tacctgctcatttgctttgtgtctttacaatgactta--tagagtttaactttcctcatccatttttcttgcttcag-
 ||||  ||| || ||||  || || ||||||||||| ||||| ||||||||||  ||||   |||| ||||||||||||||||| ||||||||||||||||||     | |||    | | |  |  || ||   | | ||| | | |  |  ||  | ||  ||||   | | |    |    | | || |    ||||| 
-TGATACTGAGTTCAATGCAAAGGTTTCTGACTTTGGTTTGGCCAAACTTTTGGATTCAGGAGAAAGTCACATTACTACTAGAGTAATGGGAACATTTGGGtatgcacatgtttcagtatctacttgactactttatagattt-tatttaaaggattgcataaatagaaacttattcctattggacctgttcccaatttcagt

upper sequence: GRMZM2G017386_T03 (Zea mays), 5'ss of exon 5
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 5'ss of exon 6
TTGATGATGAATTTAATGGCAAAGTATCTGACTTTGGATTGGCTAAACTTTTGGGATCAGACAAAAGCCACATTACTACTAGAGTGATGGGAACATTTGGgtattattcttttttc----taa---cccatacctgctcatttgctttgtgtctttacaatg---acttat----agagtttaactttcct-catccatttttcttgcttcag
|||||||||| || ||||  || || ||||| ||||||||||| || || ||||| ||||   |||||||||| || |||||||| ||||||||||||||||||  || | | |||    |||   ||| |   |  | ||    |||    || ||  ||    | || |    ||||  | |    |   ||||  || |      |||||
TTGATGATGAGTTCAATGCAAAGGTTTCTGATTTTGGATTGGCCAAGCTCTTGGGCTCAGGTGAAAGCCACATAACGACTAGAGTAATGGGAACATTTGGgtatgtttatatgttcatcttaagtcccctttagtctttatagtttttccacctgtatgatataaattttttatgagagcctcagaacctgacatcttttctctggatttcag

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|5901151|gb|AW042251.1|AW042251
EST:     TTGGGATCAGACAAAAGCCACATTACTACTAGAGTGATGGGAACATTTGG                         ATATGTTGCACCTGAATATGCTAATACGGGAATGTTAAATGAAAAGAGTGA
genomic: TTGGGATCAGACAAAAGCCACATTACTACTAGAGTGATGGGAACATTTGGgtattattct ... cttgcttcagATATGTTGCACCTGAATATGCTAATACTGGAATGTTAAATGAAAAGAGTGA