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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAGTGGCATGGGTCGCTCATATTATTATCTACCTATTAATTGATCCTCCACTTTCTCCTTTCTTGAATGAAGTTTTCATTAAGCTAGATGATGTCTGGGgtatgttggaaaactcaggctatttttctttccttcagttatgtataataattgatacattatattatatgtaatattctttcaattaatctagatgatatatgtaatttgttctttcatcag

Basic information

species Glycine max
transcript GLYMA18G43020.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G43020.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G012284_T01 (Zea mays), 5'ss of exon 7
TCAGTGGCATGGGTCGCTCATATTATTATCTACCTATTAATTGATCCTCCACTTTCTCCTTTCTTGAATGAAGTTTTCATTAAGCTAGATGATGTCTGGGgtatgttggaaaactcaggctatttttctttccttcagttatgtataataattgatacattatattatatgtaatattctttcaattaatctagatgatatatgtaatttgttctttcatcag
||| | || ||||| || |||||| | || ||| | || ||||||||||| || ||| ||||| |||||||||| ||||| ||| | |||| ||| |||||||| ||   |   ||     ||| || |   |||  | |    |    ||   || || |  ||  | ||   |||  |  ||                                       
TCAATAGCTTGGGTTGCACATATTGTCATATACTTGTTGATTGATCCTCCTCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtatcttctgatcttc----cattcttgtcaacttatgctgctgagccgaacaaattcaattaatcttctgatttatg-taccag--------------------------------------

upper sequence: GLYMA18G43020.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM5G871262_T02 (Zea mays), 5'ss of exon 9
TCAGTGGCATGGGTCGCTCATATTATTATCTACCTATTAATTGATCCTCCACTTTCTCCTTTCTTGAATGAAGTTTTCATTAAGCTAGATGATGTCTGGGgtatgttg-gaaaactcaggctatttttctttccttcagttatgtataataattgatacattatattatatgtaatattctttcaattaatctagatgatatatgtaatttgttctttcatcag
||| | || ||||| || |||||  | || ||| | || ||||||||||| || ||| ||||| |||||||||| ||||| ||| | |||| ||| |||||||| ||  |||  ||||   | ||    | |  |  | |||||  |  | ||    ||| |  | |  || |  || | | |  |  |                                   
TCAATAGCTTGGGTTGCACATATCGTCATATACTTGTTGATTGATCCTCCTCTATCTTCTTTCCTGAATGAAGTCTTCATAAAGTTGGATGGTGTTTGGGgtatcttctgaattctca---tcttccagtcttgtcaacttatg-gtgctgatgagaacaatccaattaatcttctaatttgtgtaccag----------------------------------

upper sequence: GLYMA18G43020.1 (Glycine max), 5'ss of exon 9
lower sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 9
TCAGTGGCATGGGTCGCTCATATTATTATCTACCTATTAATTGATCCTCCACTTTCTCCTTTCTTGAATGAAGTTTTCATTAAGCTAGATGATGTCTGGGgtatgttggaaaactcaggctatttttctttccttcagttatgtataataattgatacattatattatatgtaatattctttcaattaatctagatgatatatgtaatttgttctttcatcag
|| ||||| ||| | ||||| || || || || ||| |  |||| ||||| || ||||||||  |||||||||||||||| || || ||||| ||||||||||        |  |||      ||||||   |||  ||||||     || |  |||| || |    | |||  | |    |   |   | |  || | || ||  ||||  |  ||||  ||
TCTGTGGCTTGGATTGCTCACATCATCATATATCTACTTGTTGACCCTCCCCTCTCTCCTTTTCTGAATGAAGTTTTCATCAAACTGGATGACGTCTGGGgta--------acttca------ttttctgatctt--gttatgc----tactctataccttgttccttttgtg-tctgacctggctctgtgttcat-acatgtgacattttcttgttcactag

upper sequence: GLYMA18G43020.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 5'ss of exon 9
TCAGTGGCATGGGTCGCTCATATTATTATCTACCTATTAATTGATCCTCCACTTTCTCCTTTCTTGAATGAAGTTTTCATTAAGCTAGATGATGTCTGGGgtatgttggaaaactcaggctatttttctttccttcagttatgtataataattgatac-attatattatatgtaatattctt-tcaattaatctagatgatatatgtaatttgttctttcatcag
|||||||| ||| | ||||||||  | || ||  |  | ||||||||||| || ||||||||||| ||||| |||||||| ||||||||||||||||||||||       | | |   ||| | | | ||   || | ||   |  | ||  ||||   ||| |   || | |  | | ||| |   | |                                   
TCAGTGGCTTGGATTGCTCATATCGTCATATATTTGCTGATTGATCCTCCTCTGTCTCCTTTCTTAAATGAGGTTTTCATCAAGCTAGATGATGTCTGGGgtactgctatagatttttgctgtctctgttatttt-atttcctttcactagatgatcttattctgagatgtatcttgtacttcttcgtcag----------------------------------

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|6914596|gb|AW396126.1|AW396126
EST:     ACTTTCTCCTTTCTTGAATGAAGTTTTCATTAAGCTAGATGATGTCTGGG                         GTCTTCTTGGCACTGCTGCATTTGCATTTTTCTGCTTCTACCTTCTCCTTG
genomic: ACTTTCTCCTTTCTTGAATGAAGTTTTCATTAAGCTAGATGATGTCTGGGgtatgttgga ... ctttcatcagGTCTTCTTGGCACTGCTGCATTTGCATTTTTCTGCTTCTACCTTCTCCTTG
EST: gi|22522977|gb|BU081788.1|BU081788
EST:     ACTTTCTCCTTTCTTGAATGAAGTTTTCATTAAGCTAGATGATGTCTGGG                         GTCTTCTTGGCACTGCTGCATTTGCATTTTTCTGCTTCTACCTTCTCCTTG
genomic: ACTTTCTCCTTTCTTGAATGAAGTTTTCATTAAGCTAGATGATGTCTGGGgtatgttgga ... ctttcatcagGTCTTCTTGGCACTGCTGCATTTGCATTTTTCTGCTTCTACCTTCTCCTTG