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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaataggattttccctgttacaatgcatatttgttcatcacagtatgatggcattttactgttgatttctcaatgctatgtctaactgctgctatttagGTGGGTTCAGGTTCTGTTCAAGGAGCTGGAGCACCCACCATGTTTCAGGCCATGAGACGTATAGTTGGTGACTTAGCAAATAACTATGTTAGTGAAGGCT

Basic information

species Glycine max
transcript GLYMA20G32790.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G32790.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G061127_T01 (Zea mays), 3'ss of exon 1
aaaataggattttccctgttacaatgcatatttgttcatcacagtatgatggcattttactgttgatttctcaatgct--atgtcta-actgctgctatttagGTGGGTTCAGGTTCTGTTCAAGGAGCTGGAGCACCCACCATGTTTCAGGCCATGAGACGTATAGTTGGTGACTTAGCAAATAACTATGTTAGTGAAGGCT
  ||  ||       |    |  | | | |   ||    ||  | ||| |    ||||    | | |   |  ||  |  ||||  | ||      |||| |||||||||||| |||  | ||||| ||||| ||||| |||||||| ||||| |||||||| ||  | | |  |||     || | |   |  | || ||  
--aactggccacaagcaagaatta-gaacaccagtattccaaggaatgctactttttttaattgggtaatttgattattcatgttcatacctgcaatattcagGTGGGTTCAGATTCAATGCAAGGGGCTGGTGCACCAACCATGTTCCAGGCTATGAGACGAATCATCGATTCCTTGATGCATCAGTCGATGGGGGAGGGAG

upper sequence: GLYMA20G32790.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0106g00700.t01 (Vitis vinifera), 3'ss of exon 6
--aaaataggattttccctgt-tacaatgcatatttgttcatcacagtatgatggcattttactgttgatttctcaatgctatgtctaactgctgctatttagGTGGGTTCAGGTTCTGTTCAAGGAGCTGGAGCACCCACCATGTTTCAGGCCATGAGACGTATAGTTGGTGACTTAGCAAATAACTATGTTAGTGAAGGCT
  ||| |   |       ||| ||   || | |||| ||     || |      ||| | |   | |   |||| |||  | | ||||||   || | |  |||| ||||||| ||| |||||||||||||| ||||| |||||||||||||| |||||||||||| || ||  |||||   || | |||||| |||| ||  
tgaaattctcagcacatttgtatattttggaaattttttgtatgcacttc--cagcagtgt-tagctagattctaaattttgtttctaacccttgttgtgcagGTAGGTTCAGATTCAGTTCAAGGAGCTGGTGCACCAACCATGTTTCAGGCTATGAGACGTATAATTAGTTGCTTAGTTCATGAGTATGTTGGTGAGGGTG
















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|151401885|gb|EV271698.1|EV271698
EST:     TAGCAAGTGAAAGTGCAATTCGAATGGTTGCTTTATTTGACAATGAAGAG                         GTGGGTTCAGGTTCTGTTCAAGGAGCTGGAGCACCCACCATGTTTCAGGCC
genomic: TAGCAAGTGAAAGTGCAATTCGAATGGTTGCTTTATTTGACAATGAAGAGgtatttcttt ... tgctatttagGTGGGTTCAGGTTCTGTTCAAGGAGCTGGAGCACCCACCATGTTTCAGGCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgatggcattttactgttgatttctcaatgctatgtctaactgctgctatttagGTGGGTTCAGGTTCTGTTCAAGGAGCTGGAGCACCCACCATGTTTCAGGCCATGAGACGTATAGTTGGTGACTTAGCAAATAACTATGTTAGTGAAGGCT
                                   gtctaac  putative branch site (score: 2)
        attttact  TA-rich tract