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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGACCCAGCAAGTGCAAGAGATGCTGAACACAAAGAAGTTTGGTGACATTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCAAGgtatcaacatccctgttctccattcatgcgtaattatggtaggaaacttatcacagagagtcatccgatgtaactgtcaaactggtcacaagtcaaagcg...

Basic information

species Zea mays
transcript GRMZM2G054634_T01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G054634_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os10g42110.1 (Oryza sativa), 5'ss of exon 9
ATGGACCCAGCAAGTGCAAGAGATGCTGAACACAAAGAAGTTTGGTGACATTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCAAGgtatcaacatccctgttctccattcatgcgtaattatggtaggaaacttatcacagagagtcatccgatgtaactgtcaaactggtcacaagtcaaagcg-
|||||| ||||||||||||||||||||||| || |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||   |      |  ||     |  |  |   |        | |  | |||    |     |||| |   |||   ||          |   |||  
ATGGACTCAGCAAGTGCAAGAGATGCTGAATACCAAGAAGTTTGGTGACATTGCATTTAGAGACAAGGATTTCAAGACTGCAATTGACTACTACTCCAAGgtatcattgttttctcttacctaggctatgctaccgtacctttgcaatgttgacattttgcttcacgat-tgtttgtttgacacaagttgttttggagctt

upper sequence: GRMZM2G054634_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA05G06140.1 (Glycine max), 5'ss of exon 9
ATGGACCCAGCAAGTGCAAGAGATGCTGAACACAAAGAAGTTTGGTGACATTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCAAGgtatcaacatccctgttctccattcatgcgtaattatggtaggaaacttatcacagagagtc----atc-cgatgtaactgtcaaa-------ctggtcacaagtcaaagcg-----------------------------
|||||| || ||||||||||| ||  |||||||||| |||||||| || |||||||| |||||||||||||| || | ||||||||| || ||||| ||||||  |   ||  | |   |  ||  |   |  || |||        ||  | || |  ||     ||| | || |     | |         ||  ||  |||||| ||                               
ATGGACACAACAAGTGCAAGATATCTTGAACACAAAAAAGTTTGGGGATATTGCATTCAGAGACAAGGATTTCAAAAATGCAATTGAGTATTACTCTAAGgtag-attctctgtttcacctttttttaactggttttggcttattggttgcctcaaaatgttcataatctcaatatgttcttaaggtatattcctattctgaagtcatagtctgagccctttatttctttgcattaagcag

upper sequence: GRMZM2G054634_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA17G16420.1 (Glycine max), 5'ss of exon 9
ATGGACCCAGCAAGTGCAAGAGATGCTGAACACAAAGAAGTTTGGTGACATTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCAAGgta---tcaacatccctgttctccattcatgcgt-aattatggtaggaaacttatcacag-agagtcatc-cgatgtaactgtcaaa-------ctggtcacaagtcaaagcg------------------------------
|||||| || ||||| ||||| ||  |||||||||| |||||||| || |||||||| |||||||||||||| || | |||||| || || || || ||||||   |||   |  |  || ||  ||  |       || |||        || || ||  | |   ||| | || |     | | |       ||  ||  |||||| ||                                
ATGGACACAACAAGTACAAGATATCTTGAACACAAAAAAGTTTGGGGATATTGCATTCAGAGACAAGGATTTCAAAAATGCAATCGAGTATTATTCTAAGgtagattcactgtttcacttttcttttttttaaccggttttggcttattgattgtctcaatataaaaatctcaatatgttcttaagatatattcctattctgaagtcatagtctgactgccctttatttctttgcattaacag

upper sequence: GRMZM2G054634_T01 (Zea mays), 5'ss of exon 9
lower sequence: AT5G46570.1 (Arabidopsis thaliana), 5'ss of exon 7
ATGGACCCAGCAAGTGCAAGAGATGCTGAACACAAAGAAGTTTGGTGACATTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCAAGgtatcaacatccctgttctccattcatgcgtaattatggtaggaaacttatcacagagagtcatccgatgtaactgtcaaactggtcacaagtcaaagcg
|||||| || |||||||| |||||||| |||||||| ||||| || |||||||| || |||||||||||||| ||||   ||||||| ||||||||||||||   |  |       |  | |   || | ||||| | |  |        ||  | ||| |  ||  |  |   | || |  ||||  | ||        
ATGGACACAACAAGTGCAGGAGATGCTTAACACAAAAAAGTTCGGGGACATTGCTTTCAGAGACAAGGATTTCAAGAACTCAATTGAATACTACTCCAAGgtgagagga-----aatagcaacaaatccataattctcggtgt-------tcgaaaagaatt-tctaacctctgtatcta--tggtttccag--------

upper sequence: GRMZM2G054634_T01 (Zea mays), 5'ss of exon 9
lower sequence: Vv02s0012g01140.t01 (Vitis vinifera), 5'ss of exon 9
ATGGACCCAGCAAGTGCAAGAGATGCTGAACACAAAGAAGTTTGGTGACATTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCAAGgtatcaaca--tccctgttctc-cattcatgcgtaattatggtaggaaacttatcacagagagtcatccgatgtaactgtcaaactggtcacaagtcaaagcg
|||||| || ||||||||||||||| ||||||||||||| || || || ||||||||||| ||||||||||| |||| ||||||||| || || || |||||||   |   || |||  ||    |||||     |||  ||| |   | || | | |  ||    |     || ||      | |||  |    ||   |  
ATGGACACAACAAGTGCAAGAGATGTTGAACACAAAGAAATTCGGGGATATTGCATTTAGGGACAAGGATTTCAAGAGTGCAATTGATTATTATTCAAAGgtattgtcccttcactgaacttgtcttcatcaagcattg-ggtggtggatttttgaaaatgatatttgttgagttaccaattgattggatatctctccttg--

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|60397751|gb|DN230567.1|DN230567
EST:     TTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCAAG                         CTAGTTGCGATGATGTCGACGCCTTCAGCTACGGTTTTTGTCAGGCGCAGT
genomic: TTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCAAGgtatcaacat ... tctaatgcagCTAGTTGCGATGATGTCGACGCCTTCAGCTACGGTTTTTGTCAGGCGCAGT
EST: gi|60357873|gb|DN224846.1|DN224846
EST:     TTTTAAGACTGCAATTGACTACTACTCCAAG                         CTAGTTGCGATGATGTCGACGCCTTCAGCTACGGTTTTTGTCAGGCGCAGT
genomic: TTTTAAGACTGCAATTGACTACTACTCCAAGgtatcaacat ... tctaatgcagCTAGTTGCGATGATGTCGACGCCTTCAGCTACGGTTTTTGTCAGGCGCAGT
EST: gi|32943562|gb|CF048381.1|CF048381
EST:     TGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCCAAG                         CTAGTTGCGATTGATGTCGACGCCTTCAGCTACGGTTTTTGTCAGGCGCA
genomic: TGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACT-CCAAGgtatcaacat ... tctaatgcagCTAGTTGCGA-TGATGTCGACGCCTTCAGCTACGGTTTTTGTCAGGCGCA
EST: gi|89249972|gb|DY621758.1|DY621758
EST:     TTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCAAG                         CTAGTTGCGATGATGTGGACGCCTTCAGCTACGGTTTTTGTCAGGCGCAGT
genomic: TTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCAAGgtatcaacat ... tctaatgcagCTAGTTGCGATGATGTCGACGCCTTCAGCTACGGTTTTTGTCAGGCGCAGT
EST: gi|211405598|gb|FL390185.1|FL390185
EST:     TTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCAAG                         CTAGTTGCGATGATGTCGACGCCTTCAGCTACGGTTTTTGTCAGGCGCAGT
genomic: TTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCAAGgtatcaacat ... tctaatgcagCTAGTTGCGATGATGTCGACGCCTTCAGCTACGGTTTTTGTCAGGCGCAGT
EST: gi|113704357|gb|EE681861.1|EE681861
EST:     GGATTTTAAGACTGCAATTGACTACTACTCCAAG                         CTAGTTGCGATGATGTCGACGCCTTCAGCTACAGTTTTTGTCAGGCGCAGT
genomic: GGATTTTAAGACTGCAATTGACTACTACTCCAAGgtatcaacat ... tctaatgcagCTAGTTGCGATGATGTCGACGCCTTCAGCTACGGTTTTTGTCAGGCGCAGT