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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgaaaaaatatttttgatcacttgcaacctgtgctatttattcatgcggccttcacgcaattttgtacttgaatgttaaagtggctttcctctacttttcctttttacctcttaaaagggggcttacaaaatgcaaagtttgtaagtgattacatttacatgtctgggtgcagCTTTCATCAAGTGCAGCTAATGCTTCATCTAATGGGAACGGTCCTTCAGAATTAGCGGATGATGACTTGCCAAGTGTGATGACGTGTGCAAATTACCTTA

Basic information

species Glycine max
transcript GLYMA11G11490.2
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G11490.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 15
gtattgaaaaaatatttttgatcacttgcaacctgtgctatttattcatgcggccttcacgcaattttgtacttgaatgttaaagtggctttcctctacttttcctttttacctcttaaaagggggcttacaaaatgcaaagtttgtaagtgattacatttacatgtctgggtgcagCTTTCATCAAGTGCAGCTAATGCTTCATCTAATGGGAAC---GGTCCTTCAGAATTAGCGGATGATGACTTGCCAAGTGTGATGACGTGTGCAAATTACCTTA
                                                                           ||| ||  | |   |  |   ||    |  |  |||    | || | |    ||  |  || || | ||  ||     ||| | || ||| ||  |||||||| ||| || ||  |||  |   |  || | ||||| |     || || || |||| |||||||||||||||||| ||||| ||||| ||||| |||||||   
---------------------------------------------------------------------------aatttttgactatttaacaaatatgaattatcattaaggatcaacatgaacttttgactattcata-ttcataga-atttatacttgcatatcatggtgcagCATTCTTCGAGCACAGTCAGCACAGCAGCCAATGGTAGTTCTGGCCCATCGGAATCAGCGGATGATGACTTGCCCAGTGTCATGACATGTGCTAATTACC---
















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|10252579|gb|BE820345.1|BE820345
EST:     CTCCTGGTNGACTNNNAGTTCTANATCCAAAATTAACGATTGTGANGAAG                         CTTTCATCAAGTGCAGCTAATGCTTCATCTAATGGGAACGGTCCTTCAGAA
genomic: CTCCTGGTGGACTGGCAGTTCTAAATCCAAAATTAACGATTGTGAGGAAGgtattgaaaa ... ctgggtgcagCTTTCATCAAGTGCAGCTAATGCTTCATCTAATGGGAACGGTCCTTCAGAA
EST: gi|7028762|gb|AW458545.1|AW458545
EST:     CTCCTGGTGGACTGGCAGTTCTAAATCCAAAATTAACGATTGTGAGGAAG                         CTTTCATCAAGTGCAGCTAATGCTTCATCTAATGGGAACGGTCCTTCAGAA
genomic: CTCCTGGTGGACTGGCAGTTCTAAATCCAAAATTAACGATTGTGAGGAAGgtattgaaaa ... ctgggtgcagCTTTCATCAAGTGCAGCTAATGCTTCATCTAATGGGAACGGTCCTTCAGAA
EST: gi|208175474|gb|GD976869.1|GD976869
EST:     CTCCTGGTGGACTGGCAGTTCTAAATCCAAAATTAACGATTGTGAGGAAG                         CTTTCATCAAGTGCAGCTAATGCTTCAT
genomic: CTCCTGGTGGACTGGCAGTTCTAAATCCAAAATTAACGATTGTGAGGAAGgtattgaaaa ... ctgggtgcagCTTTCATCAAGTGCAGCTAATGCTTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggggcttacaaaatgcaaagtttgtaagtgattacatttacatgtctgggtgcagCTTTCATCAAGTGCAGCTAATGCTTCATCTAATGGGAACGGTCCTTCAGAATTAGCGGATGATGACTTGCCAAGTGTGATGACGTGTGCAAATTACCTTA
  ggcttac  putative branch site (score: 3)
                              attacattta  TA-rich tract