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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggctcttgatactacttatttcctatttccactacatatgaaagatacagtgttttattgatgcatgaggtaacgttacttcttgattcatgatcagGATATTTGGCAACCAGCTTTTGTTTCTTATTGGTTTAAGCTATACTAATCCAACTTATGCGGCTGCCATACAGCCATCCATTCCAGTCTTTACCTTTCTG

Basic information

species Glycine max
transcript GLYMA11G09520.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G09520.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G45870.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgaggctcttgatactacttatttcctatttccactacatatgaaagatacagtgttttattgatgcatgaggtaacgttacttcttgattcatgatcagGATATTTGGCAACCAGCTTTTGTTTCTTATTGGTTTAAGCTATACTAATCCAACTTATGCGGCTGCCATACAGCCATCCATTCCAGTCTTTACCTTTCTG
                   | |||     ||||  ||||   |    | ||      || ||   ||||      |  || |  | ||| |   |||| ||||||||||| || ||||||||||| || |||||| | |  || || |||||||||||||| || ||||| ||||| || || || || ||||| ||  | 
------------------gtaattcaagttttcttctaccagtttctgttat----cttcatgattgcaatcatcacagtgatgttttggt--gtgattagGATATTTGGTAATCAGCTTTTGTTCCTCATTGGTCTGAATTACACCAATCCAACTTATGCTGCAGCCATTCAGCCGTCGATCCCGGTTTTTACTTTCATC

upper sequence: GLYMA11G09520.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G45370.2 (Arabidopsis thaliana), 3'ss of exon 2
gtgaggctcttgatactacttatttcctatttccactacatatgaaagatacagtgttttattgatgcatgaggtaacgttacttcttgattcatgatcagGATATTTGGCAACCAGCTTTTGTTTCTTATTGGTTTAAGCTATACTAATCCAACTTATGCGGCTGCCATACAGCCATCCATTCCAGTCTTTACCTTTCTG
            | | || | |  |  ||| ||     | | ||||  || |      | |  ||| |       ||| ||   |||  ||   |||| ||||||||||| |||||| |  | |||||||| ||||||   || || |||||||||||||| ||||| ||||| ||||| || || |||||||| ||||| 
----------gtaaagtaatcagcttgtatctctttatcttttgaatcatgctaa---tgaaagattctaataacaacattcaatctcaatct-tgat-agGATATTTGGGAACCAGTTACTATTTCTTATGGGTTTATCTTACACGAATCCAACTTATGCTGCTGCTATACAACCATCAATCCCTGTCTTTACATTTCTC

upper sequence: GLYMA11G09520.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0087g00880.t01 (Vitis vinifera), 3'ss of exon 2
----------------gtgaggctcttgatactacttatttcctatttccactacatatgaa---agatacagtgttttattgatgc-atgaggtaacgttacttcttgattcatgatcagGATATTTGGCAACCAGCTTTTGTTTCTTATTGGTTTAAGCTATACTAATCCAACTTATGCGGCTGCCATACAGCCATCCATTCCAGTCTTTACCTTTCTG
                 | ||||  ||  |  |    | ||  ||||| ||  | ||||  |   |  || |||| |  ||| |  | ||   ||  | |||  |||||       |  ||||||||||| ||||||||| |||||||||||||  | ||||| || |||||||||||||| ||||||| ||| ||  | |||||||||||||| ||| | 
gtaaggcttggcaactctcaggccttttctggt-tgcacttgttatttacataatatatccatatatttagagtggtagatttacaccattttgttgc-ttaaatcttgtcattcaaatagGATATTTGGGAACCAGCTTCTGTTTCTTATTGGACTTAGCTACACAAATCCAACTTATGCAGCTGCCACACAACCTGCAATTCCAGTCTTTACATTTATA

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|7284065|gb|AW596665.1|AW596665
EST:     CCCACTACTAAGAACCTCCTGATTTCATTCTTCTTTCTTGGATTAACTGG                         GATATTTGGCAACCAGCTTTTGTTTCTTATTGGTTTAAGCTATACTAATCC
genomic: CCCACTACTAAGAACCTCCTGATTTCATTCTTCTTTCTTGGATTAACTGGgtgaggctct ... tcatgatcagGATATTTGGCAACCAGCTTTTGTTTCTTATTGGTTTAAGCTATACTAATCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatacagtgttttattgatgcatgaggtaacgttacttcttgattcatgatcagGATATTTGGCAACCAGCTTTTGTTTCTTATTGGTTTAAGCTATACTAATCCAACTTATGCGGCTGCCATACAGCCATCCATTCCAGTCTTTACCTTTCTG
          ttttattgat  TA-rich tract