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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcactgtcttaattgcctatgttcagttgacctttcagttacatccactattttttgtcctttttaatgtcaaattaagaagaaattatttttctggtcaaattgaaatgtattaatacaaaagtttccttttatcttgtag

Basic information

species Zea mays
transcript GRMZM2G124886_T02
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 14
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 5'ss of exon 5
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcactgtcttaattgcctatgttcagttgacctttcagttacatccactattttttgtcctttttaatgtcaaattaagaagaaattatttttctggtcaaattgaaatgtattaatacaaaagtttccttttatcttgtag
||||| || ||||| || |||||||||||||| |||||||||||||| || ||||||||||||||||| || ||||| |||| |                 ||   ||  |||| |  |  ||||     || |  | |     ||  || ||||  || ||  |   ||  ||| | |    ||                                          
AATCTCTATTGGGCCGATAGTGGTGATTTAGTGACAATTGCAAGTGACACCTCATTCTACATTTTGAAGTACAATgtaagtttt----------------tctgcattttgttggctctgtagtt-----caatgatgtaacatctacttgatgt--aactataacacaacaattataccttccag-----------------------------------------

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 14
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 14
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcactgtcttaattgcctatgttcagttgac------ctttcagttacatccactattttttgtcctttttaatgtcaaattaagaagaaattat-ttttctgg---tcaaattgaaatgtattaatacaaaagtttccttttatcttgtag
|| || ||||||||||||||||||||| ||||||||||||| |||||||| |||||||||||| |||| || ||||||||   | ||     ||| ||    |   |  |||||        |||| |   ||||||       |    ||     |    ||| ||  |  |||  ||| |||| | |   |  | | | | ||   |   |  | | |  | |    | ||| ||
AACCTCTACTGGGCTGACAGTGGTGATCTAGTAACAATTGCTAGTGATACATCATTCTACATTCTGAAGTACAATgtgaggattttcgtgaacttcatcttttccttatagttgttggcttgctttgaagaacatcccaccccctccccccaacacacacacaatttctgctgaatgtatattttgtagatctttactggtagtgcccttgaaacatattgacttccattattgcag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 14
lower sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 3
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcactgtcttaattgcctatgttcagttgacctttcagttacatccactattttttgtcctttttaatgtcaaattaagaagaaattatttttc-tggtcaaattgaaatgtattaatacaaaagtttccttttatcttgtag
|| || ||||||||||| ||||||||| |||| || ||||| |||||||| |||||||| ||  |||| || ||||||||   | | |   |  |     ||     ||  ||    |||  |||| ||  |    |  | |  |||  || ||    | |   || |  |||  || |   ||   |                                        
AACCTCTACTGGGCTGATAGTGGTGATCTAGTGACGATTGCTAGTGATACATCATTCTATATCCTGAAGTACAATgtgaggattctaa--attgtcccccccccccctctcttatgtttttggttaaatgaatatctgatggcacttactagtgaagcactgtaaacattttaacttccactgttgcag---------------------------------------

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 14
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 14
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcactgtcttaattgcctatgttcagttgacctttcagttacatccactattttttgtcctttttaatgtcaaattaagaagaaatt-atttttctggtcaaattgaaatgtattaatacaaaagtttccttttatcttgtag
|| || ||||||||||||||||||||| ||||||||||||| || ||||| |||||||||||| |||| || ||||||||  || |||    ||| ||    |   |  || ||     |   || ||   |  || ||||| || ||   || ||     ||     | || |    |||   |   | |     | | || |       ||||     | ||| ||
AACCTCTACTGGGCTGACAGTGGTGATCTAGTAACAATTGCTAGCGATACATCATTCTACATTCTGAAGTACAATgtgaggactctcatgaacttcatcttttccttatagatgttggcttgctttca---agaatattttgccccttactatttctgccgaatgtatatttgacagatctttactggtagtgccctttaaacattttgacttccac---tattgcag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 14
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 14
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcactgtcttaattgcctatgtt----cagttgacctttcagttacatccactattttttgtcctttttaatgtcaaattaagaagaaattatttttctggtcaaattgaaatgtattaatacaaaagtttccttttatc-ttgtag
|| || ||||||||||| || ||||||||||| || ||||| |||||||| |||||||| ||  | || || ||||||||   | | | |   | |      ||| ||      |||||| ||| |   | |  ||   ||||    ||| |    | |    ||||    | ||    |  |   |   | ||||    | |||   | |  ||  |||  ||  ||| ||
AACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAATgtgaggattctaaatacttgacccttttattttacacttgttgactttttatgaaaaagcatcgttttcccccctat---gtttttggttaaatgaatatctgatggcacttactagtgaagcacagtaa---acattttaacttccattgttgcag

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 14
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 18
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcactgtcttaattgcctatgttcagttgacctttcagttacatccactattttttgtcctttttaatgtcaaattaagaagaaattatttttctggtcaaattgaaatgtattaatacaaaagtttccttttatcttgtag
|||||||| ||||| |||||||||||| ||||  ||||||| |||||||| |||||||||||  | || |  ||||||||        || | ||||       |  | ||       |   ||    | |  || ||| | | | |  || |||     |  ||   |  |  ||||  | |    |   | |||  |  |  |                      
AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggat-----cttttttaaaccttggtagtgagccagaactcttgtacatttccttagtttattttcctagtactgttgctgttcgagaca--tggttttaagctgttttcttactgttctgctgtag---------------------

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 14
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 14
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcactgtcttaattgcctatgttcagttgacctttcagttacatccactattttttgtcctttttaatgtcaaattaagaagaaattatttttctggtcaaattgaaatgtattaatacaaaagtttccttttatcttgtag
|||||||| |||||||| ||||||||||||||| | ||||| |||||||||||||||||||| ||||| || ||||||||        |||| | ||   |  |||||||| |    |||   | |   ||||| ||  | |    ||  || |   | |   |      |   | ||   |                                             
AATCTTTATTGGGCTGAAAGTGGTGATTTAGTAGCCATTGCTAGTGATACGTCATTCTACATCTTGAAGTACAATgtgagaat-----ctgt-tcaacctcaaatgttcagctattattt---tcattcccact-ttcgtggattgttcaaaagcttactctggtgttcctcgctattacag---------------------------------------------

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 14
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 14
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcactgtcttaattgcctatgttcagttgacctttcagttacatccactattttttgtcctttttaatgtcaaattaagaagaaattatttttctggtcaaattgaaatgtattaatacaaaagtttccttttatcttgtag
||||| || |||||||||||||||||||||||| | ||||| ||||| || ||||||||||| |||||||  || |||||     |  |   |  ||   |   | | | ||  |  | |       ||   | |||  | |    |   | ||  ||   | |  |   || || | | |                                              
AATCTATATTGGGCTGACAGTGGTGATTTAGTAGCCATTGCTAGTGACACATCATTCTACATCTTGAAATTCAACgtgaggatcctgtccaac--aaacactcttatgctgtgaatttct-------atatgcgattcatggattgtccaagtgctaa--catggtgttcttgttatacag----------------------------------------------

upper sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 14
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 14
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcactgtcttaattgcctatgttcagttgacctttcagttacatccactattttttgtcctttttaatgtcaaattaagaagaaattatttttctggtcaaattg--aaatgtattaatacaaaagtttccttttatcttgtag
|||||||| |||||||| ||||||||||||||  |||||||||||||| | ||||| ||||| || || || ||||| || | | || || | |   |  | |||      || |      |    |||  | |  |  |      | ||  | | | | | |   || ||||  |  ||     ||     |||| | || ||     ||                  
AATCTTTATTGGGCTGATAGTGGTGATTTAGTGGCAATTGCAAGTGATTCATCATTTTACATCTTAAAGTACAATgtaagctttctccctttttggttctcttatcccacttttatgagaaatcatcatagatttgtcataaaatctattcgttttacaatcatttgagattaagtacctcacttaacaaccaaatatgtttatttggcag------------------

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|31355222|gb|CD439579.1|CD439579
EST:     ATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAAT                         AGGGATGTAGTTTCATCTCA
genomic: ATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctg ... tatcttgtagAGGGATGTAGTTTCATCTCA