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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCTTCGAGATGATAAGCAGTTCTTCATAGACCATCCTGGTGCTGTACCCATTACCACCGTTCAGgtatttttttattttttattttttgtgtgattctctagttgttttacatttctagtgcattcttgtaattaactttagtttttaatctaaaatttgcttatcttcttaaag

Basic information

species Glycine max
transcript GLYMA16G23340.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G23340.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os02g02840.1 (Oryza sativa), 5'ss of exon 5
ACCTTCGAGATGATAAGCAGTTCTTCATAGACCATCCTGGTGCTGTACCCATTACCACCGTTCAGgtatttttttattttttattttttgtgtgattctctagttgttttacatttctagtgcattcttgtaattaactttagtttttaat-ctaaaatttgcttatcttcttaaag--------------------
| ||||||||||| |||||||| ||  | ||||||||||||||||| || || ||||| | |||||||   || |    ||  |   |||| | ||||  || ||  | ||    ||       | |||| || |  || | |  |  | | | | |  ||| | || || ||                        
ATCTTCGAGATGACAAGCAGTTTTTTGTGGACCATCCTGGTGCTGTTCCTATCACCACTGCTCAGgtacagttgtggcatt-gtgggttgtttaattccttatttactgta-gcatcagagatgtacttgcaactc-ctgtggactacattgccatatcttgatcatttttttgttccttaattgccacttttgtag

upper sequence: GLYMA16G23340.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM5G803949_T02 (Zea mays), 5'ss of exon 5
ACCTTCGAGATGATAAGCAGTTCTTCATAGACCATCCTGGTGCTGTACCCATTACCACCGTTCAGgtat--ttttttattttttatt-ttttgtgtgattctctagtt-gttttacatt-----------tctagtgcattcttgtaattaactt----tagtttttaatctaaaatttgcttatcttcttaaag---------------------------
| ||||||||||| |||||||||||  | ||||||||||||||||| || || || || | ||||||||  |  ||  |  || | | |  ||| || | ||||||   ||  |||||             |  ||| ||| |   || ||   |    | |||||     |      ||  | |  ||| | |                            
ATCTTCGAGATGACAAGCAGTTCTTTGTGGACCATCCTGGTGCTGTTCCTATCACTACTGCTCAGgtatggtcattggtgattcactatcctgtttgctgctctagggagtaatacataaacgtttgagacccggtgaattttgtcaactactctgtcctggttttcttcttgtccggtgactgttgtctaacatggttaccttgccctcaccgccttatag

upper sequence: GLYMA16G23340.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G35950.1 (Arabidopsis thaliana), 5'ss of exon 5
ACCTTCGAGATGATAAGCAGTTCTTCATAGACCATCCTGGTGCTGTACCCATTACCACCGTTCAGgtatttttttattttttattttttgtgtgattctctagttgttttacatttctagtgcattcttgtaattaactttagtttttaatctaaaatttgcttatcttcttaaag
| ||||||||||| || ||||| ||||| ||||||||||||||||| || |||||||| |||||||||    |  | || || |  |  |||  ||| | |    | |||||     |   ||||| |     |   | |                                    
ATCTTCGAGATGACAAACAGTTTTTCATCGACCATCCTGGTGCTGTCCCTATTACCACTGTTCAGgtaagaatacagttatt-tcctcagtgcaattttat--cagctttaccaccgttaagcattttccctctctgcatggaag-------------------------------

upper sequence: GLYMA16G23340.1 (Glycine max), 5'ss of exon 5
lower sequence: AT2G17800.2 (Arabidopsis thaliana), 5'ss of exon 6
ACCTTCGAGATGATAAGCAGTTCTTCATAGACCATCCTGGTGCTGTACCCATTACCACCGTTCAGgtatttttttattttttattttttgtgtgattctctagttgttttacatttctagtgcattcttgtaattaactttagtttttaatctaaaatttgcttatcttcttaaag
| ||||| ||||| || ||||||||||| ||||| ||||| |||||||| ||||| || | |||||||       | ||||| |||    ||||    | || ||    |     |  |  | |  ||| |||           |||     | |||                   
ATCTTCGGGATGACAAACAGTTCTTCATTGACCACCCTGGCGCTGTACCAATTACTACTGCTCAGgtaaaca--gaatttttctttgaaatgtgtcaatttacttagcctgttacttaaacgaacccttttaaccgttcaccactttgggcatcaaag------------------

upper sequence: GLYMA16G23340.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv04s0023g03860.t01 (Vitis vinifera), 5'ss of exon 6
ACCTTCGAGATGATAAGCAGTTCTTCATAGACCATCCTGGTGCTGTACCCATTACCACCGTTCAGgtatttttttattttttattttttgtgt--gattctctagttgttttacatttctagtgcattcttgtaattaactttagtttttaatctaaaatttgcttatcttc-ttaaag-----------
| ||||| || || |||||||||||||||||||||||||||||||| |||||  |  | | |||||||   | | || | | |    || |    ||||   |  ||  ||| |||||  ||    || |   || |||  ||   ||||  | |   ||||  || | ||  || | |           
ATCTTCGGGAAGACAAGCAGTTCTTCATAGACCATCCTGGTGCTGTGCCCATCTCTGCAGCTCAGgtaaaatatgatgtgtcaaacattatcacagatttaatccttaatttgcattt--agaattttttgcaaaataatattttctttttttgttttatttatttgtatttattcatgtttcatccaag

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|192330643|gb|FK021962.1|FK021962
EST:     AGCAGTTCTTCATAGACCATCCTGGTGCTGTACCCATTACCACCGTTCAG                         GGAGAAGAACTTATGAAGCTGATTAATGCACCTGCTTACATTGAATGCAGT
genomic: AGCAGTTCTTCATAGACCATCCTGGTGCTGTACCCATTACCACCGTTCAGgtattttttt ... cttcttaaagGGAGAAGAACTTATGAAGCTGATTAATGCACCTGCTTACATTGAATGCAGT
EST: gi|192330642|gb|FK021961.1|FK021961
EST:     AGCAGTTCTTCATAGACCATCCTGGTGCTGTACCCATTACCACCGTTCAG                         GGAGAAGAACTTATGAAGCTGATTAATGCACCTGCTTACATTGAATGCAGT
genomic: AGCAGTTCTTCATAGACCATCCTGGTGCTGTACCCATTACCACCGTTCAGgtattttttt ... cttcttaaagGGAGAAGAACTTATGAAGCTGATTAATGCACCTGCTTACATTGAATGCAGT