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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatattttcccctggggtttcttttttttatgtgaaatggggctaaaagcccaaggaaaagagactaaacaggaatgacacgaggggtttctttcgctatatgtattactggatgatttttcttccttttattgataaccattttttaatatttcccccctag

Basic information

species Glycine max
transcript GLYMA02G39360.1
intron # 28
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 28
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 28
TTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatattttcccctggggtttcttttttttatgtgaaatggggctaaaagcccaaggaaaagagactaaacaggaatgacacgaggggtttctttcgctatatgtattactggatgatttttcttccttttattgataaccattttttaatatttcccccctag
||| |||||  | ||||||||  | || ||  | ||||||||||||||||| || ||||||||||| ||| | || ||||| ||||| || || |||||||||| || |  ||    |||  | | |||          ||| |||       | | | |     | | |     |  |||      | ||| |  ||                                                                  
TTGTCTCTTTATTTGTTATGACTTGATCCGTGCGGATGTTGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACTTTGCATTCCCCTATCTGTTACAGgtatcttgtttcc----gttcatgtgttt----------gggactattcatttacgtacagttttccata-----acaacaaagcttgcttcatgtgcag----------------------------------------------------------------

upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 28
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 28
TTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatattttcccctggggtttcttttttttatgtgaaatggggctaaaagcccaaggaaaagagactaaacaggaatgacacgaggggtttctttcgctatatgtattactggatgatttttcttccttttattgataaccattttttaatatttcccccctag
||| |||||  | ||||||||  | || ||  | ||||||||||||||||| || ||||||||||| ||| | || ||||| ||||| || || |||||||||| || |  ||     | | |||        | |  |  |   |     |||    ||  |  ||      |  ||                                                                                      
TTGTCTCTTTATTTGTTATGACTTGATCCGTGCGGATGTTGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACTTTGCATTCCCCTATCTGTTACAGgtatcttgtttccgttcatgtgtttgggactattcatttacgaacagttttccataacaacaaagcttgcttcgtgtgcag-----------------------------------------------------------------------------------

upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 28
lower sequence: GRMZM2G062042_T02 (Zea mays), 5'ss of exon 13
TTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatattttcccctggggtttcttttttttatgtgaaatggggctaaaagcccaaggaaaagagactaaacaggaatgacacgaggggtttctttcgctatatgtattactggatgatttttcttccttttattgataaccattttttaatatttcccccctag
|||||||||| | || || ||  | || ||||| ||||| ||||||||||| || ||||||||||| ||| | || ||||| ||||| ||||| |||||||||  |           ||   || | |  ||||    | | ||  |   |       | | ||     | || ||   | | |  |   | | |  || | ||                                                            
TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACTTTGCCTTCCCGTACCTGTTACAGgtacgt----------agtaatttctgtccatgt----tcgcgccgacgtctacttacatacagttaccatagtaacatccctactgtgctatgtgactgtctgcgcag-------------------------------------------------------

upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 28
lower sequence: GRMZM2G115138_T01 (Zea mays), 5'ss of exon 12
TTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatattttcccctggggtttcttttttttatgtgaaatggggctaaaagcccaaggaaaagagactaaacaggaatgacacgaggggtttctttcgctatatgtattactggatgatttttcttccttttattgataaccattttttaatatttcccccctag
|||||||||| | || || ||  | || ||||| ||||| ||||||||||| || ||||||||||| ||| | || ||||| ||||| ||||| |||||||||  |           ||   || | |  ||||    | | ||  |   |       | | ||     | || ||   | | |  |   | | |  || | ||                                                            
TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACTTTGCCTTCCCGTACCTGTTACAGgtacgt----------agtaatttctgtccatgt----tcgtgccgacgtctatttacatacagttaccatagtaacatccctactgtgctatgtgactgtgtgcgcag-------------------------------------------------------

upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 28
lower sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 5
TTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatattttcccctggggtttcttttttttatgtgaaatggggctaaaagcccaaggaaaagagactaaacaggaatgacacgaggggtttctttcgctatatgtattactggatgatttttcttccttttattgataaccattttttaatatttcccccctag
|||||||||| | || || ||  | || ||||| ||||| ||||||||||| || ||||||||||| ||| | || ||||| ||||||||||| || ||||||  ||    |      | |||     | ||||    |   |   ||    | | |  || |  |       |  ||                                                                                      
TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttacttctgtccatatctgacggtgatgtttgtttatgtataatttactatggtaacatccatgctgcgtgtgcag-----------------------------------------------------------------------------------

upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 28
lower sequence: GRMZM2G395549_T01 (Zea mays), 5'ss of exon 13
TTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatattttcccctggggtttcttttttttatgtgaaatggggctaaaagcccaaggaaaagagactaaacaggaatgacacgaggggtttctttcgctatatgtattactggatgatttttcttccttttattgataaccattttttaatatttcccccctag
|||||||||| | || || ||  | || ||||| ||||| ||||||||||| || ||||||||||| ||| | || ||||| ||||| ||||| |||||||||  |           ||   |||| |  ||||    | | ||  |   |       | | ||  ||  |   | | |||        | | | |  | |  | |                                                          
TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACTTTGCCTTCCCGTACCTGTTACAGgtacgt----------agtaatttttgtccatgt----tcgcgccgacgtctatttacatacagttta--ccatagtaaca--------tccctactatgtgcgcag---------------------------------------------------------

upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 28
lower sequence: GRMZM2G057576_T02 (Zea mays), 5'ss of exon 26
TTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatattttcccctggggtttcttttttttatgtgaaatggggctaaaagcccaaggaaaagagactaa-acaggaatgacacgaggggtttctttcgctatatgtattactggatgatttttcttccttttattgataaccattttttaatatttcccccctag
|||||||||| | || || ||  | || ||||||||||| ||||||||||| || ||||||||||| ||| | || ||||| ||||| ||||| || ||||||  |           ||   || | |  ||||    | | ||  |   |       | | ||  ||  | || ||   | | |  |   | | |  || | ||                                                            
TTGCCTCTTCATTTGCTACGACCTGATCCGGCCAGATGTGGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACTTTGCCTTCCCGTACCTGTTGCAGgtacgt----------agtaatttctgtccatgt----tcgtgccgacgtctatttacatacagtttaccatagtaacatctctactgtgctatgtgactgtgtgcgcag-------------------------------------------------------

upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 28
lower sequence: GRMZM2G091121_T01 (Zea mays), 5'ss of exon 8
TTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatattttcccctggggtttcttttttttatgtgaaatggggctaaaagcccaaggaaaagagactaaacaggaatgacacgaggggtttctttcgctatatgtattactggatgatttttcttccttttattgataaccattttttaatatttcccccctag
|||||||||| | || || ||  | || ||||| ||||| ||||||||||| || ||||||||||| ||| | || ||||| ||||| ||||| |||||||||  |           ||   || | |  ||||    | | |   |   |       | | ||     | || ||   | | |  |   | | |  || | ||                                                            
TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACTTTGCCTTCCCGTACCTGTTACAGgtacgt----------agtaatttctgtccatgt----tcgtgtcgacgtctatttacatatagttaccatagtaacatccctactgtgctatgtgactgtgtgcgcag-------------------------------------------------------

upper sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 28
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 28
TTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatattttcccctggggtttcttttttttatgtgaaatggggctaaaagcccaaggaaaagagactaaacaggaatgacacgaggggtttctttcgctatatgtattactggatgatttttcttccttttattgataaccattttttaatatttcccccctag
 |||||||| |||||||| ||| |||| |||||||| ||||  |||||||| || ||||||||||||||||| || ||||| |||||||| |||||||||||| | |           ||| |||      |||   ||  ||||       |||         | |       ||  ||  |     ||| ||||                                                                    
ATGCCTCTTTGTCTGTTACGATTTAATTCGGCCAGACGTTGTCCTTGAGCTTGCATGGATGAACAATATGATCGACTTTGCCTTCCCATATCTCTTACAGgtaaact----------atttgtttcacccttgttctatttggct-----ttcaaatcgtcttcattttctctcaaccac-tgttcattttttttcatag----------------------------------------------------------------

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|58019532|gb|CX706274.1|CX706274
EST:     TAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAG                         TTTATTCGAGAGTATACTGGTAAAGTTGATGAGCTTATCAAGGACAAAATT
genomic: TAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatattttc ... tcccccctagTTTATTCGAGAGTATACTGGTAAAGTTGATGAGCTTATCAAGGACAAAATT
EST: gi|58016487|gb|CX703229.1|CX703229
EST:     TAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAG                         TTTATTCGAGAGTATACTGGTAAAGTTGATGAGCTTATCAAGGACAAAATT
genomic: TAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatattttc ... tcccccctagTTTATTCGAGAGTATACTGGTAAAGTTGATGAGCTTATCAAGGACAAAATT