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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtctatattcttctttgctgaatgcttttatcctagtattctcaggaagcatttcatatcattaatcataaaatgtaaatgcactattatgtttgttctggcagCAATATGGAGATATCCGAACCATTTATACAGCCAGTAAGCATCGTGGGTTTGTCATGATTTCTTATCAAGATCTAAGGGCAGCACAAAATGCAATGCAAG

Basic information

species Glycine max
transcript GLYMA08G01040.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G01040.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv17s0000g00240.t01 (Vitis vinifera), 3'ss of exon 5
gtgtgtctata--ttcttctttgctgaatgcttttatcctagtattctcaggaagcatttcatatcattaatcataaaatgtaaatgcactattatgttt-gttctggcagCAATATGGAGATATCCGAACCATTTATACAGCCAGTAAGCATCGTGGGTTTGTCATGATTTCTTATCAAGATCTAAGGGCAGCACAAAATGCAATGCAAG
||  || |||   |||||  |  ||  | |  |||  | | | | |||| | |||| | ||||   |    || |  ||  | |||  ||   ||||||   ||||  |||||||||||||| ||||||||  |||| |||||  | |||||||| |||||||| |||||||||||| | ||| ||||||||||   ||||||||||  ||
gtacgtatattatttctttatcccttgaagtgtttgacttgggagtctctgcaagcttgtcat-caaagcttcttggaagttcaattaacacatatgttccattctttcagCAATATGGAGACATCCGAACACTTTACACAGCTTGCAAGCATCGCGGGTTTGTTATGATTTCTTATTATGATATAAGGGCAGCCAGAAATGCAATGAGAG
















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|193619658|gb|FK570854.1|FK570854
EST:     GAAACATTAATAGCAATGTAGAAGACTCTGAGCTAAAGGCTCTCTTTGAG                         CAATATGGAGATATCCGAACCATTTATACAGCCAGTAAGCATCGTGGGTTT
genomic: GAAACATTAATAGCAATGTAGAAGACTCTGAGCTAAAGGCTCTCTTTGAGgtgtgtctat ... gttctggcagCAATATGGAGATATCCGAACCATTTATACAGCCAGTAAGCATCGTGGGTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catttcatatcattaatcataaaatgtaaatgcactattatgtttgttctggcagCAATATGGAGATATCCGAACCATTTATACAGCCAGTAAGCATCGTGGGTTTGTCATGATTTCTTATCAAGATCTAAGGGCAGCACAAAATGCAATGCAAG
          cattaat  putative branch site (score: 3)
                                          tttgttct  putative PPT
      atatcattaatcataa  TA-rich tract