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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGGAGAGTATGGAAAATGCTCTACGAGCATGCTGCAAAGGTATCAAGATTGGGAAAATTCTTATTCATAGAGAAGGTGACAATGGTCAACAGgtttgtcatctgtgtgtgtgcttgggtatacctgtgtcggattcatttcatgatcactagtgtcttttttttttggtgattcactaacttgtcctttgattattgagcag

Basic information

species Glycine max
transcript GLYMA02G47270.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G47270.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 12
TGGGGAGAGTATGGAAAATGCTCTACGAGCATGCTGCAAAGGTATCAAGATTGGGAAAATTCTTATTCATAGAGAAGGTGACAATGGTCAACAGgtttgtcatctgtgtgtgtgcttgggtatacctgtgtcggattcatttcatgatcactagtgtcttttttttttggtgattcactaacttgtcctttgattattgagcag
||| ||||||||||| |||||  | || ||||||||||||||||| || |||||||| ||||||||||| || ||||| ||||||||  ||||||||||   | |   | |    ||||   ||  |||   ||| | | |  |  || ||||   ||||  ||  |||  |                                
TGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTGCAAAGGTATAAAAATTGGGAAGATTCTTATTCACAGGGAAGGAGACAATGGCAAACAGgtttg--gttta-atctacttttggcattatttgt--tggagttagtcaa--attactaagctcttgattccttgcag--------------------------------

upper sequence: GLYMA02G47270.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os11g16370.1 (Oryza sativa), 5'ss of exon 12
TGGGGAGAGTATGGAAAATGCTCTACGAGCATGCTGCAAAGGTATCAAGATTGGGAAAATTCTTATTCATAGAGAAGGTGACAATGGTCAACAGgtttgtcatctgtgtgtgtgcttgggtatacctgtgtcggattcatttcatgatcactagtgtcttttttttttggtgattcactaacttgtcctttgattattgagcag
||| ||||||||||| |||||  | || |||||||| |||||||| || |||||||| ||||||||||| |||||||| ||||||||  ||||||||||   | |     | | |||  ||||   | ||| ||| | |  |||  || |||    ||||  ||  |||  |                                
TGGTGAGAGTATGGAGAATGCATTGCGGGCATGCTGTAAAGGTATAAAAATTGGGAAGATTCTTATTCACAGAGAAGGAGACAATGGCAAACAGgtttg--gttta---atctacttttgtattgtt-tgttggagttaagtcac-attactgagctcttgattccttgcag--------------------------------

upper sequence: GLYMA02G47270.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G169462_T01 (Zea mays), 5'ss of exon 11
TGGGGAGAGTATGGAAAATGCTCTACGAGCATGCTGCAAAGGTATCAAGATTGGGAAAATTCTTATTCATAGAGAAGGTGACAATGGTCAACAGgtttgtcatctgtgtgtgtgcttgggtatacctgtgtcggattcatttcatgatcactagtgtcttttttttttggtgattcactaacttgtcctttgattattgagcag
||| || |||||||| ||||| ||||| |||||||| |||||||| ||||||||||| |||||||||||| | |||||||||||||| |||||||| || | | |     | |||         | |||||  |  | | |  |  || ||||   |||   ||| || |                                  
TGGCGAAAGTATGGAGAATGCACTACGTGCATGCTGTAAAGGTATAAAGATTGGGAAGATTCTTATTCATCGGGAAGGTGACAATGGACAACAGgtctggcttatcaacttttgc---------catgtgttagggtgagtcaa--attactaagatctaaatttctttgcag-------------------------------

upper sequence: GLYMA02G47270.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G034143_T01 (Zea mays), 5'ss of exon 12
TGGGGAGAGTATGGAAAATGCTCTACGAGCATGCTGCAAAGGTATCAAGATTGGGAAAATTCTTATTCATAGAGAAGGTGACAATGGTCAACAGgtttgtcatctgtgtgtgtgcttgggtatacctgtgtcggattcatttcatgatcactagtgtct-tttttttttggtgattcactaacttgtcctttgattattgagcag
||| || || ||||| |||||  ||||||||||||| |||||||| ||||||||||| |||||||||||| | ||||| |||||||| |||||||| ||   | |     | |||         | |||||  |  | | |  |  || ||||   ||| ||||||||| |                                  
TGGCGAAAGCATGGAGAATGCGTTACGAGCATGCTGTAAAGGTATAAAGATTGGGAAGATTCTTATTCATCGGGAAGGAGACAATGGACAACAGgtctgatttatcaacttttgc---------catgtgttagggtgagtcaa--attactaagatctattttttttttgcag-------------------------------

upper sequence: GLYMA02G47270.1 (Glycine max), 5'ss of exon 12
lower sequence: AT1G55810.1 (Arabidopsis thaliana), 5'ss of exon 12
TGGGGAGAGTATGGAAAATGCTCTACGAGCATGCTGCAAAGGTATCAAGATTGGGAAAATTCTTATTCATAGAGAAGGTGACAATGGTCAACAGgtttgtcatctgtgtgtgtgcttgggtatacctgtgtcggattcatttcatgatcactagtgtcttttttttttggtgattcactaacttgtcctttgattattgagcag
 || ||||||||||| || |||||  |||||||||||||||| ||||| |||||||| ||||| |||||||||||||| |||||||||||||||||||||  ||| | | ||  | |   |   |||       |   ||||  | |  || | || |  |                                           
CGGTGAGAGTATGGAGAACGCTCTTAGAGCATGCTGCAAAGGCATCAAAATTGGGAAGATTCTGATTCATAGAGAAGGCGACAATGGTCAACAGgtttgtgttctttctctgctcatcacttctcct-------aactatttactaacaacaaatggcactcaccag-------------------------------------

upper sequence: GLYMA02G47270.1 (Glycine max), 5'ss of exon 12
lower sequence: AT1G55810.2 (Arabidopsis thaliana), 5'ss of exon 11
TGGGGAGAGTATGGAAAATGCTCTACGAGCATGCTGCAAAGGTATCAAGATTGGGAAAATTCTTATTCATAGAGAAGGTGACAATGGTCAACAGgtttgtcatctgtgtgtgtgcttgggtatacctgtgtcggattcatttcatgatcactagtgtcttttttttttggtgattcactaacttgtcctttgattattgagcag
 || ||||||||||| || |||||  |||||||||||||||| ||||| |||||||| ||||| |||||||||||||| |||||||||||||||||||||  ||| | | ||  | |   |   |||       |   ||||  | |  || | || |  |       | | ||  || |                        
CGGTGAGAGTATGGAGAACGCTCTTAGAGCATGCTGCAAAGGCATCAAAATTGGGAAGATTCTGATTCATAGAGAAGGCGACAATGGTCAACAGgtttgtgttctttctctgctcatcacttctcct-------aactatttactaacaacaaatggcactcacca--gcttatctacgagaag--------------------

upper sequence: GLYMA02G47270.1 (Glycine max), 5'ss of exon 12
lower sequence: AT4G26510.2 (Arabidopsis thaliana), 5'ss of exon 12
TGGGGAGAGTATGGAAAATGCTCTACGAGCATGCTGCAAAGGTATCAAGATTGGGAAAATTCTTATTCATAGAGAAGGTGACAATGGTCAACAGgtttgtcatctgtgtgtgtgcttgggtatacctgtgtcggattcatttcatgatcactagtgtcttttttttttggtgattcactaacttgtcctttgattattgagcag
||| ||||| ||||| |||||  |||||||||| ||||||||||||||||| ||||| || || ||||| ||||||||||||||||||||||||||     |        | |  ||   |  |  |||      |   |||||| |    |  ||||| | |   |  |                                  
TGGTGAGAGCATGGAGAATGCGTTACGAGCATGTTGCAAAGGTATCAAGATCGGGAAGATCCTAATTCACAGAGAAGGTGACAATGGTCAACAGgtaaacgagtcactcctat--ttcattccaggtgt------tctgtttcatcactgttgatgtctgtatcactgtgcag-------------------------------

upper sequence: GLYMA02G47270.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv19s0015g01730.t01 (Vitis vinifera), 5'ss of exon 12
TGGGGAGAGTATGGAAAATGCTCTACGAGCATGCTGCAAAGGTATCAAGATTGGGAAAATTCTTATTCATAGAGAAGGTGACAATGGTCAACAGgtttgtca------tctgtgtgtgtgcttgggtatacctgtgtcggattcatttcatg-at-----cactagtgtcttttttttttggtgat--tcactaacttgtcctttgattattgagcag
||| ||||||||||| |||||| | |||||||| |||||||||||||| |||||||| |||||||| ||||| ||||| || || ||||| |||||| | ||      ||| | | |||      || | ||     | ||  || | ||   ||     |||   | ||| | |  |    |  |      |   || |  ||  || | ||  |||
TGGTGAGAGTATGGAGAATGCTTTGCGAGCATGTTGCAAAGGTATCAAAATTGGGAAGATTCTTATCCATAGGGAAGGGGATAACGGTCAGCAGgttggacagatctctctctctctgtatccttgtctcccatgcacagacacactacacacatgcatgcacagatatctatctactaacattttgactgtttttttatgtttcaatgactggacag

upper sequence: GLYMA02G47270.1 (Glycine max), 5'ss of exon 12
lower sequence: PP1S83_234V6.1 (Physcomitrella patens), 5'ss of exon 12
TGGGGAGAGTATGGAAAATGCTCTACGAGCATGCTGCAAAGGTATCAAGATTGGGAAAATTCTTATTCATAGAGAAGGTGACAATGGTCAACAGgttt--gtca-tctgtgtgtgtgcttgggtatac-ctgtgtcggattcatttcatgatcact-agtgtcttttttttttggtgattcactaacttgtcctttgattattg--agcag-----------------------------------------------
 |||||||| ||||| ||||| || || || ||||||||||| ||||||||||| || ||| | || ||| | ||||| || ||||| |||||||| |  |||| | |    ||||     ||| | | || | |     | |||  | ||  | | | | |   |||  ||  || ||   |   |||   |||  |     |  | ||                                                
CGGGGAGAGCATGGAGAATGCACTGCGGGCGTGCTGCAAAGGCATCAAGATTGGAAAGATTTTGATACATCGCGAAGGAGATAATGGGCAACAGgtatcagtcaatttaatcgtgttggatggtgttcactatttttccctgattgtacgaatattcactcttcatttggttcagtaatgatcagtcttagacttccagcgaggtcaacaatgcaactcatcctttgtttaggctgacttaatttttgcactttgcag

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|298180251|gb|HO025466.1|HO025466
EST:     TCAAGATTGGGAAAATTCTTATTCATAGAGAAGGTGACAATGGTCAACAG                         CTAATATATGAGAAGTTGCCTAATGACATCTCAGATAGGCATGTATTACTG
genomic: TCAAGATTGGGAAAATTCTTATTCATAGAGAAGGTGACAATGGTCAACAGgtttgtcatc ... tattgagcagCTAATATATGAGAAGTTGCCTAATGACATCTCAGATAGGCATGTATTACTG