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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttttagctttttattctttttgactcatagatgcattcaatcatgcgatattaatagcaaccacaaactgcattattttttaaacagGAATCGTCTGTAATGAAGGAGGTTCCAGTAGTGATCATGTCATCTGAGAACATACCAACACGGATTAACAA

Basic information

species Glycine max
transcript GLYMA04G40100.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G40100.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0067g03070.t01 (Vitis vinifera), 3'ss of exon 3
------------gtattttttagctt--tttattctttttgactcatagatgcattcaatcatgcgatattaatagcaaccacaaactgcattattttttaaacagGAATCGTCTGTAATGAAGGAGGTTCCAGTAGTGATCATGTCATCTGAGAACATACCAACACGGATTAACAA
              |||||  ||     ||   |||  || |  | |   |  |  |  | || |  ||||  ||       |    |   |    ||  || ||| | || ||  |  |||||||||||||||| ||||| |||||||| || ||||| ||||| || || || ||
gttagtaaagtcaaattttccaggaaagttccctctgctttaacctttttttaagcccttaattctttatttttatacttttctttttttctctccttccaagcagCAGTCATCCATCTTGAAGGAGGTTCCAGTTGTGATAATGTCATCAGAAAACATCCCAACTCGAATCAATAA
















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|298163324|gb|HO012057.1|HO012057
EST:     ACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAG                         GAATCGTCTGTAATGAAGGAG
genomic: ACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAGgtatttttta ... ttttaaacagGAATCGTCTGTAATGAAGGAG
EST: gi|26268490|gb|CA819553.1|CA819553
EST:     ACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAG                         GAATCGTCTGTAATGAAGGAGGTTCCAGTAGTGATCATGTCATCTGAGAAC
genomic: ACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAGgtatttttta ... ttttaaacagGAATCGTCTGTAATGAAGGAGGTTCCAGTAGTGATCATGTCATCTGAGAAC
EST: gi|151395777|gb|EV265654.1|EV265654
EST:     ACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAG                         GAATCGTCTGTAATGAAGGAGGTTCCAGTAGTGATCATGTCATCTGAGAAC
genomic: ACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAGgtatttttta ... ttttaaacagGAATCGTCTGTAATGAAGGAGGTTCCAGTAGTGATCATGTCATCTGAGAAC
EST: gi|10255796|gb|BE823562.1|BE823562
EST:     ACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAG                         GAATCGTCTGTAATGAAGGAGGTTCCAGTAGTGATCATGTCATCTGAGAAC
genomic: ACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAGgtatttttta ... ttttaaacagGAATCGTCTGTAATGAAGGAGGTTCCAGTAGTGATCATGTCATCTGAGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcattcaatcatgcgatattaatagcaaccacaaactgcattattttttaaacagGAATCGTCTGTAATGAAGGAGGTTCCAGTAGTGATCATGTCATCTGAGAACATACCAACACGGATTAACAA
                tattaat  putative branch site (score: 2)
                                        ttatttttt  putative PPT
                                       attattttttaaaca  TA-rich tract