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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatgaaatcaacataaacactcaaagccaatcttgaaaatcttcctgctgtctctttcttaatgttaaatctcatttggctctatgctgccttcagAATATTCAAGGTTTCATGTGGGAGGAAGAAAAAGTAAACCATGAGCTGAAGAAGTACATGACCAGATCTTTCCGGGATATCAAGGCAATGTGTAAAATTC

Basic information

species Glycine max
transcript GLYMA05G05460.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G05460.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv00s0204g00160.t01 (Vitis vinifera), 3'ss of exon 1
-------gtaaatgaaa-tcaacataaacactcaaagccaatcttgaaaatcttcctgctgtctctttcttaatgttaaatctcatttggctctatgctgccttcagAATATTCAAGGTTTCATGTGGGAGGAAGAAAAAGTAAACCATGAGCTGAAGAAGTACATGACCAGATCTTTCCGGGATATCAAGGCAATGTGTAAAATTC
         |||||||| ||  ||    ||| |       || ||  |  | |  | ||| ||| || | |  | || || || |  || |||| |||       |||| |||||||| ||||||||||| ||||| ||||| ||||| || ||  ||||||| ||||  ||||| |||| |||  | |||||||||||| ||| ||
aatgaaaacaaatgaaaatctgcacccccacccctcatttattttcgatctgtatcagct-tcttttacgtg-tattgaagcttaaatgtctctgtgca-----tagAACATTCAAGGATTCATGTGGGACGAAGAGAAAGTGAACCACGAACTTCAGAAGTATATGAGGAGATCCTTCCTGGACGTAAAGGCAATGTGTCAAACTC
















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|16280614|gb|BI944054.1|BI944054
EST:     TTTATGCCAATGCTGGTGGAGTGACTGTGAGCTACTTTGAATGGGTTCAG                         AATATTCAAGGTTTCATGTGGGAGGAAGAAAAAGTAAACCATGAGCTGAAG
genomic: TTTATGCCAATGCTGGTGGAGTGACTGTGAGCTACTTTGAATGGGTTCAGgtaaatgaaa ... ctgccttcagAATATTCAAGGTTTCATGTGGGAGGAAGAAAAAGTAAACCATGAGCTGAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcctgctgtctctttcttaatgttaaatctcatttggctctatgctgccttcagAATATTCAAGGTTTCATGTGGGAGGAAGAAAAAGTAAACCATGAGCTGAAGAAGTACATGACCAGATCTTTCCGGGATATCAAGGCAATGTGTAAAATTC
               tcttaat  putative branch site (score: 3)
                                             ctgccttc  putative PPT
             tttcttaatgttaaat  TA-rich tract