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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGGGCTATTAATTTAATGGCTGATGTTGCCCAAGAGGAACACTTGAATAAGATGAATGCACGGAACATCGCCATGGTTTTTGCACCAAATATGACTCATgtgagttccaattttttattttttttaaattctccaatttactaaaatgcatgtggacatcttggaaatccaactgaaattttattctgagtgaaggatt...

Basic information

species Glycine max
transcript GLYMA11G18900.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G18900.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os11g05540.1 (Oryza sativa), 5'ss of exon 4
CTGGGCTATTAATTTAATGGCTGATGTTGCCCAAGAGGAACACTTGAATAAGATGAATGCACGGAACATCGCCATGGTTTTTGCACCAAATATGACTCATgtga-gttccaattttttattttttttaaattctccaatttactaaaatgcatgtggacatcttggaaatccaactgaaattttattctgagtgaaggatt
 |||||  ||||||||||||||||||||| |||||| |||||  | || ||||||||||| || ||||| || |||||||||||||||||||||||||| || | |  |     |  || |    |||   | |  | | |  |  | ||| |   | |||     | ||  ||   |                       
GTGGGCAGTTAATTTAATGGCTGATGTTGTCCAAGAAGAACAGATAAACAAGATGAATGCTCGTAACATTGCTATGGTTTTTGCACCAAATATGACTCAGgtaatgcactgtcctaataataaacttatgattttaagtgtggtcga-tgcttactgtcatgc-acatatgtaatgcag----------------------

upper sequence: GLYMA11G18900.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os12g05900.1 (Oryza sativa), 5'ss of exon 4
CTGGGCTATTAATTTAATGGCTGATGTTGCCCAAGAGGAACACTTGAATAAGATGAATGCACGGAACATCGCCATGGTTTTTGCACCAAATATGACTCATgtgagttccaattttttattttttttaaattctccaatttactaaaatgcatgtggacatcttggaaatccaactgaaattttattctgagtgaaggatt
||||||| ||||||| ||||||||||||| |||||| || ||  | || ||||||||||| || || || ||||||||||||||||||||||||||||| ||       | | | ||||  | ||   ||    ||   |||| | ||     | |        | | || |||||   |   |     | || ||    
CTGGGCTGTTAATTTGATGGCTGATGTTGTCCAAGAAGAGCAAATAAACAAGATGAATGCGCGCAATATTGCCATGGTTTTTGCACCAAATATGACTCAGgt-------agtgtgttatcctattgcgat----catggtactgatatttcattaggt------ggattctaactgttgtcacacatgtaatgcag----

upper sequence: GLYMA11G18900.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv06s0080g00580.t01 (Vitis vinifera), 5'ss of exon 4
CTGGGCTATTAATTTAATGGCTGATGTTGCCCAAGAGGAACACTTGAATAAGATGAATGCACGGAACATCGCCATGGTTTTTGCACCAAATATGACTCATgtgagttccaattttttatttttttt--aaattctccaatttactaaaatgcatgtggacatcttggaaatccaactgaaattttattctgagtgaaggatt---
 ||||| || ||  | ||||| ||||| | ||| ||||| ||  | || || ||||||||||| ||||| || ||||| ||||||||||| |||||||| ||||| |  |||  ||||   || ||  ||||| ||||| | |   |  |||||||  | ||    |||||  ||   | ||    |||| | || |   |    
TTGGGCCATCAACCTCATGGCAGATGTCGTCCAGGAGGAGCATCTAAACAAAATGAATGCACGCAACATTGCAATGGTCTTTGCACCAAACATGACTCAGgtgaggttgaatggtttacgcttcttgaaaattgtccaagt-agggatttgcatgtccagat----gaaattgaatgaatatgacgttctcattgcattttaaat

upper sequence: GLYMA11G18900.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S60_256V6.1 (Physcomitrella patens), 5'ss of exon 4
CTGGGCTATTAATTTAATGGCTGATGTTGCCCAAGAGGAACACTTGAATAAGATGAATGCACGGAACATCGCCATGGTTTTTGCACCAAATATGACTCATgtg-agttccaattttttatttttt--ttaaattctccaatttactaaaatgcatgtggacatcttggaaatccaactg-aaattttattctgagtgaaggatt--------------------------------------------------------------------------------------------
 |||||| | ||  | ||||||||||| |   |  | ||    |  ||||| |||||||| ||||||||||| ||||| ||||| ||||| ||||| || ||  |||     || |    ||||     | |    |  ||  || |  |        ||| || | || ||   |||  | ||  | |  |    |    ||                                                                                             
TTGGGCTGTCAACCTGATGGCTGATGTGGTGGAGCACGAGTCGTACAATAAAATGAATGCTCGGAACATCGCTATGGTGTTTGCCCCAAACATGACACAGgtatagtgttgtttctacgcttttcacccagagaagctgatg-accattacaagatcagac-tcgtagagatttcactacagatgctgtcttcgacgtttcatgtgctgaatttgaacgtaggtattccgtgtttatggtgtttcaattgttgtagaatgtgtaacatttattgacattgcttcattatccttcag

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|51344603|gb|CO985336.1|CO985336
EST:     AGATGAATGCACGGAACATCGCCATGGTTTTTGCACCAAATATGACTCAT                         ATGGCAGATCCTTTGACTGCATTGATGTATGCAGTTCAAGTGATGAACTTC
genomic: AGATGAATGCACGGAACATCGCCATGGTTTTTGCACCAAATATGACTCATgtgagttcca ... ctggttgcagATGGCAGATCCTTTGACTGCATTGATGTATGCAGTTCAAGTGATGAACTTC