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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGGAGAGTATGGAGAATGCTTTGAGAGCATGCTGTAAAGGTATAAAGATTGGGAAAATTTTAATTCACAGAGAAGGTGACAATGGTCAGCAGgttagttcatctgcatctatggtttggtacaaatctctgtttcacttggtgatactgatatcttatgctttgatcaatgatcag

Basic information

species Glycine max
transcript GLYMA08G45270.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os11g16370.1 (Oryza sativa), 5'ss of exon 12
TGGGGAGAGTATGGAGAATGCTTTGAGAGCATGCTGTAAAGGTATAAAGATTGGGAAAATTTTAATTCACAGAGAAGGTGACAATGGTCAGCAGgttag--ttcatctgcatctatggtttggtacaaatctctgtttcact-tggtgatactgatatcttatgctttgatcaatgatcag
||| ||||||||||||||||| ||| | |||||||||||||||||||| |||||||| ||| | |||||||||||||| ||||||||  | |||||| |  || |||| | | | |  | |       |  |  ||  || |   | | |  ||||  |||                    
TGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTGTAAAGGTATAAAAATTGGGAAGATTCTTATTCACAGAGAAGGAGACAATGGCAAACAGgtttggtttaatctacttttgtattgtttgttggagttaagtcacattactgagctcttgattccttgcag----------------

upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 12
TGGGGAGAGTATGGAGAATGCTTTGAGAGCATGCTGTAAAGGTATAAAGATTGGGAAAATTTTAATTCACAGAGAAGGTGACAATGGTCAGCAGgttagttcatctgcatctatggtttggtacaaatctctgtttcacttggtgatactgatatcttatgctttgatcaatgatcag
||| ||||||||||||||||| ||| | |||||||| ||||||||||| |||||||| ||| | |||||||| ||||| ||||||||  | |||||| | |    |  |||||   ||||| |  |   | ||||  | || || | | |  ||   | |   ||  |    |     
TGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTGCAAAGGTATAAAAATTGGGAAGATTCTTATTCACAGGGAAGGAGACAATGGCAAACAGgtttggt----ttaatctact-tttggcatta---tttgttggagttagtcaaattactaagctcttgattccttgcag-----

upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G034143_T01 (Zea mays), 5'ss of exon 12
TGGGGAGAGTATGGAGAATGCTTTGAGAGCATGCTGTAAAGGTATAAAGATTGGGAAAATTTTAATTCACAGAGAAGGTGACAATGGTCAGCAGgt-tagttcatctgcatctatggtttggtacaaatctctgtttcacttggtgatactgatatcttatgctttgatcaatgatcag
||| || || ||||||||||| ||  ||||||||||||||||||||||||||||||| ||| | |||||  | ||||| |||||||| || ||||| |  || |||  | | |    | || ||            | |||  |   || |  | | ||                    
TGGCGAAAGCATGGAGAATGCGTTACGAGCATGCTGTAAAGGTATAAAGATTGGGAAGATTCTTATTCATCGGGAAGGAGACAATGGACAACAGgtctgatttatcaacttttgccatgtgttagggtgagtcaaattactaagatctattttttttttgcag----------------

upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G169462_T01 (Zea mays), 5'ss of exon 11
TGGGGAGAGTATGGAGAATGCTTTGAGAGCATGCTGTAAAGGTATAAAGATTGGGAAAATTTTAATTCACAGAGAAGGTGACAATGGTCAGCAGgt-tagttcatctgcatctatggtttggtacaaatctctgtttcacttggtgatactgatatcttatgctttgatcaatgatcag
||| || ||||||||||||||  |  | ||||||||||||||||||||||||||||| ||| | |||||  | |||||||||||||| || ||||| | | | |||  | | |    | || ||        ||  |||  |     |||| | |||| |   | |   ||        
TGGCGAAAGTATGGAGAATGCACTACGTGCATGCTGTAAAGGTATAAAGATTGGGAAGATTCTTATTCATCGGGAAGGTGACAATGGACAACAGgtctggcttatcaacttttgccatgtgttaggg-----tgagtcaaat-----tactaagatctaaatttctttgcag-------

upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 12
lower sequence: AT1G55810.1 (Arabidopsis thaliana), 5'ss of exon 12
TGGGGAGAGTATGGAGAATGCTTTGAGAGCATGCTGTAAAGGTATAAAGATTGGGAAAATTTTAATTCACAGAGAAGGTGACAATGGTCAGCAGgttagttcatctgcatctatggtttggtacaaatctctgtttcacttggtgatactgatatcttatgctttgatcaatgatcag
 || |||||||||||||| ||| | ||||||||||| ||||| || || |||||||| ||| | ||||| |||||||| ||||||||||| |||||| ||   |||   |||   | |    ||   ||||      | ||  | | |   | ||   |  |                
CGGTGAGAGTATGGAGAACGCTCTTAGAGCATGCTGCAAAGGCATCAAAATTGGGAAGATTCTGATTCATAGAGAAGGCGACAATGGTCAACAGgtttgtgt-tctttctct---gctcatcact--tctcctaactatttactaacaacaa-atggcactcaccag-----------

upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 12
lower sequence: AT1G55810.2 (Arabidopsis thaliana), 5'ss of exon 11
TGGGGAGAGTATGGAGAATGCTTTGAGAGCATGCTGTAAAGGTATAAAGATTGGGAAAATTTTAATTCACAGAGAAGGTGACAATGGTCAGCAGgttagttcatctgcatctatggtttggtacaaatctctgtttcacttggtgatactgatatcttatgctttgatcaatgatcag
 || |||||||||||||| ||| | ||||||||||| ||||| || || |||||||| ||| | ||||| |||||||| ||||||||||| |||||| ||   |||   |||     |   | |   |  || ||| |||       | ||  | || |     | ||| | ||  ||
CGGTGAGAGTATGGAGAACGCTCTTAGAGCATGCTGCAAAGGCATCAAAATTGGGAAGATTCTGATTCATAGAGAAGGCGACAATGGTCAACAGgtttgtgt-tctttctctgctcatcacttctcctaactattt-actaacaacaaatggca-ctcaccagcttatctacgagaag

upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 12
lower sequence: AT4G26510.2 (Arabidopsis thaliana), 5'ss of exon 12
TGGGGAGAGTATGGAGAATGCTTTGAGAGCATGCTGTAAAGGTATAAAGATTGGGAAAATTTTAATTCACAGAGAAGGTGACAATGGTCAGCAGgttagttcatctgcatctatggtttggtacaaat-ctctgtttcacttggtgatactgatatcttatgctttgatcaatgatcag
||| ||||| ||||||||||| ||  ||||||| || |||||||| ||||| ||||| ||  |||||||||||||||||||||||||||| ||||| |     ||  |  ||||  ||   | ||  |  |||||||||        |  |||| |||    |  ||  ||        
TGGTGAGAGCATGGAGAATGCGTTACGAGCATGTTGCAAAGGTATCAAGATCGGGAAGATCCTAATTCACAGAGAAGGTGACAATGGTCAACAGgtaaacgagtc-actcctat--ttcattccaggtgttctgtttcatc----actgttgatgtctgtatcactgtgcag-------

upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv19s0015g01730.t01 (Vitis vinifera), 5'ss of exon 12
TGGGGAGAGTATGGAGAATGCTTTGAGAGCATGCTGTAAAGGTATAAAGATTGGGAAAATTTTAATTCACAGAGAAGGTGACAATGGTCAGCAGgttag-----------ttcatctgcatctatggtttg---gtacaaatctctgtttcacttggtgatactgatatctt-------atgctttgatcaatgatcag-------------------
||| ||||||||||||||||||||| ||||||| || |||||||| || |||||||| ||| | || || || ||||| || || |||||||||||| |           |   |||| |||  ||  |     | ||| |         ||| ||     || |||||||        |   |||||    |  |                      
TGGTGAGAGTATGGAGAATGCTTTGCGAGCATGTTGCAAAGGTATCAAAATTGGGAAGATTCTTATCCATAGGGAAGGGGATAACGGTCAGCAGgttggacagatctctctctctctgtatccttgtctcccatgcacagacacactacacacatgcatgcacagatatctatctactaacattttgactgtttttttatgtttcaatgactggacag

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|31311442|gb|CD396645.1|CD396645
EST:     TAAAGATTGGGAAAATTTTAATTCACAGAGAAGGTGACAATGGTCAGCAG                         CTAATATATGAAAAGTTGCCNAATGATATCTCAGATAGGCATGTGTTACTG
genomic: TAAAGATTGGGAAAATTTTAATTCACAGAGAAGGTGACAATGGTCAGCAGgttagttcat ... caatgatcagCTAATATATGAAAAGTTGCCAAATGATATCTCAGATAGGCATGTGTTACTG
EST: gi|13240468|gb|BG359777.1|BG359777
EST:     TAAAGATTGGGAAAATTTTAATTCACAGAGAAGGTGACAATGGTCAGCAG                         CTAATATATGAAAAGTTGCCAAATGATATCTCAGATAGGCATGTGTTACTG
genomic: TAAAGATTGGGAAAATTTTAATTCACAGAGAAGGTGACAATGGTCAGCAGgttagttcat ... caatgatcagCTAATATATGAAAAGTTGCCAAATGATATCTCAGATAGGCATGTGTTACTG