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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgagcacaatgctaagtatcatgtaaatcaatttggacttggtatacaagtttcctttttcatggaattttgatgttgcctttccaaactgtttatgcagGAAGCAATGATGAAAGATACATTAGAACGGGCAACAGAACCTAACCTGAACTTGAAAGGTTATCTTCAGAATGCCTATGTTCACCCAGTTTTTAAGGACA

Basic information

species Glycine max
transcript GLYMA20G16230.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G16230.3 (Glycine max), 3'ss of exon 6
lower sequence: AT4G04340.1 (Arabidopsis thaliana), 3'ss of exon 11
----------tgagcacaatgctaagt-atcatgtaaatcaatttggacttggtatacaagtttcctt--tttcatggaattttgatgttgcctt-tccaaactgtttatgcagGAAGCAATGATGAAAGATACATTAGAACGGGCAACAGAACCTAACCTGAACTTGAAAGGTTATCTTCAGAATGCCTATGTTCACCCAGTTTTTAAGGACA
          |   |   ||    | | || || |   |  | || || ||     ||   ||   |   ||| | |       ||  | ||    |    | | ||| | |||||||| ||||||||||||||||| ||| | |||| ||| || || |||||| ||||||||||  | ||  | || ||| |||| || |||||||| | | 
gtcagtttcttctacgttatctagatttattatttctgtttagttcgatttttgtcactgtttggatcggttttacgagccccagaaatggcaaaatgttgattattt-tacagGAAGCTATGATGAAAGATACATTGGAAAGAGCAAGAGAGCCAAATCTGAACCTGAAAGGTTACTTGCAAGACGCTTATATTCATCCGGTTTTTAAAGGCG

upper sequence: GLYMA20G16230.3 (Glycine max), 3'ss of exon 6
lower sequence: AT4G22120.5 (Arabidopsis thaliana), 3'ss of exon 9
tgagcacaatgctaagtatcatgtaaatcaatttggacttggtatacaagtttcctttttcatggaattttgatgttgcctttccaaactgtttatgcagGAAGCAATGATGAAAGATACATTAGAACGGGCAACAGAACCTAACCTGAACTTGAAAGGTTATCTTCAGAATGCCTATGTTCACCCAGTTTTTAAGGACA
         ||     | |  |   || || ||   | ||   || | |   || |     |    | |    | |||  |||    |||  |  | |||||||| |||||||||||||||||||||   |||| |||||| ||||||||| | ||||| ||  | || ||||| || ||||| || ||||| || | | 
------gtttgtcgtttcttctaacaaccatttaacattttagattccacaatcataccaaacacgaatc-attcttgtatttgtttactcgtgttacagGAAGCTATGATGAAAGATACATTAGAAACCGCAAGAGAACCAAACCTGAACCTTAAAGGCTACTTGCAAAATGCTTACGTTCATCCGGTTTTCAAAGGCG

upper sequence: GLYMA20G16230.3 (Glycine max), 3'ss of exon 6
lower sequence: AT1G62320.1 (Arabidopsis thaliana), 3'ss of exon 10
------tgagcacaatgctaagtatcat--gtaaatcaatttggacttggtatacaagtttcctttttcatggaattttgatgttgcctttccaaactgtttatgcagGAAGCAATGATGAAAGATACATTAGAACGGGCAACAGAACCTAACCTGAACTTGAAAGGTTATCTTCAGAATGCCTATGTTCACCCAGTTTTTAAGGACA
      | |   |||     || ||  |  || |||  ||      ||    ||||  | |  |  ||||     | ||  |    | | |    || | || | |||||||| ||||| || |||||||| ||||| |||| |||||| ||| ||||  | ||||| | |||||||||||| |||||||| || |||||||| ||| 
gttagctcaaaccaagatcgagcattttcggttaatggatggtagttttagctacatttgttttggttcagtttgtgttatttaatcttgtgagtaccggtt-tacagGAAGCTATGATTAAGGATACATTGGAACGAGCAAGAGAACCAAACTTGAATCTTAAAGGGTTTCTTCAGAATGCATATGTTCATCCTGTTTTTAAAGACG

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|31459337|gb|CD401365.1|CD401365
EST:     GGTACTGCAAAGGCCGTTTTGAATCTGCATTTGTTAAATTTCCCTTACAG                         GAAGCAATGATGAAAGATACATTAGAACGGGCAACAGAACCTAACCTGAAC
genomic: GGTACTGCAAAGGCCGTTTTGAATCTGCATTTGTTAAATTTCCCTTACAGgtatgtcaat ... gtttatgcagGAAGCAATGATGAAAGATACATTAGAACGGGCAACAGAACCTAACCTGAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaagtttcctttttcatggaattttgatgttgcctttccaaactgtttatgcagGAAGCAATGATGAAAGATACATTAGAACGGGCAACAGAACCTAACCTGAACTTGAAAGGTTATCTTCAGAATGCCTATGTTCACCCAGTTTTTAAGGACA
                      ttttgat  putative branch site (score: 4)
                    aattttgat  TA-rich tract