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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAAGAACTTGCTCGGTCCACAGATGATTTCAATGGAGCTCAACTGAAGGCTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAGgtttgttttcttccagatatgcagcaacttaatagcttaaacatcaatttataaaaaaagtaaaataataccatgattcatcctaggagatatttactgg...

Basic information

species Glycine max
transcript GLYMA20G38030.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os06g07630.1 (Oryza sativa), 5'ss of exon 9
TGAAGAACTTGCTCGGTCCACAGATGATTTCAATGGAGCTCAACTGAAGGCTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAGgtttgttttcttccagatatgcagcaacttaatagcttaaacatcaatttataaaaaaagtaaaataataccatgattcatcctaggagatatttactgg----
|||||| || ||||| || |||||||| ||||||||||| |||||||| ||||||||||| || ||||| ||| | || || || || ||||| || ||||| ||  ||| |       |     ||    ||| | |     |    ||||||         |||    | | | ||  |  |   || | |||| ||     
TGAAGAGCTGGCTCGCTCAACAGATGACTTCAATGGAGCGCAACTGAAAGCTGTTTGTGTCGAAGCTGGTATGCTTGCACTGCGGCGAGATGCTACAGAGgtgtgacttcctattttattcttataatcccataacgttcctttgttcttataatcc---cgtaatgtccctaaggttt-tggtttcagttctttattgagggg

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os02g56000.1 (Oryza sativa), 5'ss of exon 9
TGAAGAACTTGCTCGGTCCACAGATGATTTCAATGGAGCTCAACTGAAGGCTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAGgtttgtttt-cttccagatatgcagcaacttaatagcttaaacatcaatttataaaaaaagtaaaataataccatgattcatcctaggagatatttactgg
||||||  | || || || || || || |||||||| || ||||||||||| |||||||| || || |||||| | || |||||||| ||||| || ||||||||| || | | | ||| |   | || ||  | | | |   |    | |||| |    | |         | ||||  ||||   |  | |   | |||
TGAAGAGTTGGCACGATCTACGGACGACTTCAATGGTGCACAACTGAAGGCCGTTTGTGTAGAAGCAGGCATGCTTGCCCTACGCCGAGATGCTACAGAGgtttgtgttacattctgatcttgtg-aatttgtttggtaacttactggtatatatattggggattggcgggacctgatcaatccattggtaaaagcaatgg

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 9
lower sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 9
TGAAGAACTTGCTCGGTCCACAGATGATTTCAATGGAGCTCAACTGAAGGCTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAGgtttgttttcttccagatatgcagcaacttaatagcttaaacatcaatttataaaaaaagtaaaataataccatgattcatcctaggagatatttactgg
|||||| ||||||||||| || ||||||||||||||||||||||| || || || |||||||| || || ||| | || || ||||| |||||||||||||| ||        || ||||    |  |||| | | |  ||| | |   | |  |  |  |  |  || |   | | |  |    | ||           
TGAAGAGCTTGCTCGGTCAACGGATGATTTCAATGGAGCTCAACTCAAAGCAGTGTGTGTTGAAGCGGGTATGCTTGCCCTGCGCCGGGATGCAACTGAGgtatg--------catatatctttcgtcttagtggttgtaactttaggatgtggatgatatggaggaa-atggtaaat-gtgtgtgcag-----------

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G05530.1 (Arabidopsis thaliana), 5'ss of exon 9
TGAAGAACTTGCTCGGTCCACAGATGATTTCAATGGAGCTCAACTGAAGGCTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAGgtttgttttcttccagatatgcagcaacttaatagcttaaacatcaatttataaaaaaagtaaaataa--taccatgattcatcctaggagatatttactgg-
||| || ||||| || || ||||||||||||||||||||||| ||||| || || ||||| ||||| |||||||| ||||| ||||||||||| || |||||          |   |     |   | || |  |||| |  ||    |  |       ||    |||  |    |  |   |  | |    | | |  |   
TGAGGAGCTTGCACGATCAACAGATGATTTCAATGGAGCTCAGCTGAAAGCAGTGTGTGTAGAGGCAGGCATGTTAGCTCTTCGCCGTGATGCCACAGAGgtaaaaaaga--cagaactcttaatgatttga--gctttatgattgtgtagtttggtctgttttttaaggtggggttctctgttgttgtgtttgtgtgttcag

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv14s0060g02260.t01 (Vitis vinifera), 5'ss of exon 9
TGAAGAACTTGCTCGGTCCACAGATGATTTCAATGGAGCTCAACTGAAGGCTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAGgt--ttgttttcttccagatatgcagcaacttaa-tagcttaaacatcaattta-taaaaaaagtaaaataataccatgattcatcctaggagatatttactgg
||||||||| ||||| |||||||||||||||||||| || |||||||| ||||||||||| ||||| || ||| ||||||| || |||||||||||||||||  |   | ||| ||  |  | |  | ||     |  ||    |||    | | | |||  ||      |    |   || | |  ||  |||| |  |    
TGAAGAACTGGCTCGATCCACAGATGATTTCAATGGGGCACAACTGAAAGCTGTTTGTGTAGAGGCGGGAATGCTGGCTCTTCGTCGTGATGCAACTGAGgtactctctctctaccccacctcctcctacccctctccctcgtgcatgtgctgaatgaaactagcttgccagccaccccat-ctttttaacagatttgaag---

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 9
lower sequence: PP1S340_7V6.1 (Physcomitrella patens), 5'ss of exon 9
TGAAGAACTTGCTCGGTCCACAGATGATTTCAATGGAGCTCAACTGAAGGCTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAGgtttgttttcttccagatatgcagcaacttaatagcttaaacatcaatttataaaaaaagtaaaataataccatgattcatcctaggagatatttactgg--
||| ||  | ||||| || |||||||| || || ||||||||| |||||||||| ||| ||||||| || |||||||| || ||||||||||| || || ||  ||| |         ||      |||       |     |||||| |  |      ||   ||   |     ||  ||  |  ||  | ||   |    
TGAGGAGTTGGCTCGCTCAACAGATGACTTTAACGGAGCTCAATTGAAGGCTGTGTGTATTGAGGCCGGAATGTTGGCGCTTCGCCGTGATGCCACGGAAgtaagttattcaaggagcattttcatactatgctagtcttgtatcaatcttaattttctgttcgattgaaagtcaatcaatgtt--gaattgttgcatcatc

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|192317514|gb|FK008966.1|FK008966
EST:     CTGTTTGTGTTGAGGCTGGCATGTTGGCTTTACGCCGTGATGCAACTGAG                         GTGAACCATGAGGACTTTAATGAAGGTATTATTCAAGTCCAAGCAAAGAAG
genomic: CTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAGgtttgttttc ... ccaaacgtagGTGAACCATGAGGACTTTAATGAAGGTATTATTCAAGTCCAAGCAAAGAAG
EST: gi|209727252|gb|BW663198.1|BW663198
EST:     ACGCCGTGATGCAACTGAG                         GTGAACCATGAGGACTTTAATGAAGGTATTATTCAAGTCCAAGCAAAGAAG
genomic: ACGCCGTGATGCAACTGAGgtttgttttc ... ccaaacgtagGTGAACCATGAGGACTTTAATGAAGGTATTATTCAAGTCCAAGCAAAGAAG
EST: gi|31460097|gb|CD402125.1|CD402125
EST:     CTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAG                         GTGAACCATGAGGACTTTAATGAAGGTATTATTCAAGTCCAAGCAAAGAAG
genomic: CTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAGgtttgttttc ... ccaaacgtagGTGAACCATGAGGACTTTAATGAAGGTATTATTCAAGTCCAAGCAAAGAAG
EST: gi|208096865|gb|GD894196.1|GD894196
EST:     CTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAG                         GTGAACCATGAGGACTTTAATGAAGGTATTATTCAAGTCCAAGCAAAGAAG
genomic: CTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAGgtttgttttc ... ccaaacgtagGTGAACCATGAGGACTTTAATGAAGGTATTATTCAAGTCCAAGCAAAGAAG
EST: gi|209718511|gb|BW662656.1|BW662656
EST:     CTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAG                         GTGAACCATGAGGACTTTAATGAAGGTATTATTCAAGTCCAAGCAAAGAAG
genomic: CTGTTTGTGTTGAGGCTGGCATGTTGGCTCTACGCCGTGATGCAACTGAGgtttgttttc ... ccaaacgtagGTGAACCATGAGGACTTTAATGAAGGTATTATTCAAGTCCAAGCAAAGAAG