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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatttcgatcctatttctccatttaggtttaatttccgatcgttgatttcttactagatcttctattttcttggatcgttatactctcagGCATGTTCCGGCGCGGTTCACTGCCAGCTTCTCGATGCCGCTCATCCAGGGATCGTGCCTATGCACAAGGTCAATTTCGACGCCAAGAGCGAGTATGAGA

Basic information

species Glycine max
transcript GLYMA01G39720.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G39720.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os10g35580.1 (Oryza sativa), 3'ss of exon 1
------------------------------------------gttatt--tcgatcctatttctccatttaggtttaatttccgatcgttgatttcttactagatcttctattttcttggatcgttatactctcagGCATGTTCCGGCGCGGTTCACTGCCAGCTTCTCGATGCCGCTCATCCAGGGATCGTGCCTATGCACAAGGTCAATTTCGACGCCAAGAGCGAGTATGAGA
                                          ||| ||  | |    | ||  | |     |  |  ||||    |   |   |||||  |    |   |   ||   |  | | | |  | |  |    || | || |||||    ||||||||  | || || || || || |||   ||||| |||||||||||||| |||||||||||||  ||||| ||||
gtaaatcgcgctcttcctcccccttgggttttgattcggttggttgtttgttggatttcttgatgcgcggggcgtggattttttttttctcggttcttgatgtggcgatttgatttgggtgtgggtttcgtgtagGCTGCGT-CGGGGGCGGTGGCGTGCCAGCTGATGGACGCGGCGCACCCGGGGGCGGTGCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGAGA

upper sequence: GLYMA01G39720.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G163409_T02 (Zea mays), 3'ss of exon 1
----------------------------------------------------------------gttatttcgatcctatt--------tctccatttaggtttaatttccgatcg-ttgatttcttactagatcttctattttcttggat--cgttatactctcagGCATGTTCCGGCGCGGTTCACTGCCAGCTTCTCGATGCCGCTCATCCAGGGATCGTGCCTATGCACAAGGTCAATTTCGACGCCAAGAGCGAGTATGAGA
                                                                | | |   |   |||||        || |  ||   |        |  | || |||  ||||       ||    |      |||    | |  |  ||||||||    || |||||||||   ||||| ||  | || || || ||||| ||   |||||| |||||||||||||| |||||||||||||  ||||| || |
gtaagcagcgcccgcccgggtccctcttcccgatctgtgccgttcgcgttagtggtggagccaaggtttccgggatctattcggagggttccctgttcgtgcgggcgggctaagcggttgggttctgtgcgagtccctgaaaccagtggtcgacttcgtggtctcagGCGGCGTCAGGCGCGGTTGCGTGCCAACTGATGGACGCGGCGCATCCCGGCGCCGTGCCGATGCACAAGGTCAACTTCGACGCCAAGACGGAGTACGACA
















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|151393328|gb|EV263203.1|EV263203
EST:     TTTCTTGGATCAACTCAACTCTGCAACTCAATCTCTCCAAAGTCGAAGAG                         GCATGTTCCGGCGCGGTTCACTGCCAGCTTCTCGATGCCGCTCATCCAGGG
genomic: TTTCTTGGATCAACTCAACTCTGCAACTCAATCTCTCCAAAGTCGAAGAGgttatttcga ... atactctcagGCATGTTCCGGCGCGGTTCACTGCCAGCTTCTCGATGCCGCTCATCCAGGG
EST: gi|193716853|gb|FK649861.1|FK649861
EST:     TTTCTTGGATCAACTCAACTCTGCAACTCAATCTCTCCAAAGTCGAAGAG                         GCATGTTCCGGCGCGGTTCACTGCCAGCTTCTCGATGCCGCTCATCCAGGG
genomic: TTTCTTGGATCAACTCAACTCTGCAACTCAATCTCTCCAAAGTCGAAGAGgttatttcga ... atactctcagGCATGTTCCGGCGCGGTTCACTGCCAGCTTCTCGATGCCGCTCATCCAGGG
EST: gi|192301066|gb|FG987991.1|FG987991
EST:     TTTCTTGGATCAACTCAACTCTGCAACTCAATCTCTCCAAAGTCGAAGAG                         GCATGTTCCGGCGCGGTTCACTGCCAGCTTCTCGATGCCGCTCATCCAGGG
genomic: TTTCTTGGATCAACTCAACTCTGCAACTCAATCTCTCCAAAGTCGAAGAGgttatttcga ... atactctcagGCATGTTCCGGCGCGGTTCACTGCCAGCTTCTCGATGCCGCTCATCCAGGG
EST: gi|192296790|gb|FG993088.1|FG993088
EST:     TTTCTTGGATCAACTCAACTCTGCAACTCAATCTCTCCAAAGTCGAAGAG                         GCATGTTCCGGCGCGGTTCACTGCCAACTTCTCGGTGCCGCTCATCCAGGG
genomic: TTTCTTGGATCAACTCAACTCTGCAACTCAATCTCTCCAAAGTCGAAGAGgttatttcga ... atactctcagGCATGTTCCGGCGCGGTTCACTGCCAGCTTCTCGATGCCGCTCATCCAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgatcgttgatttcttactagatcttctattttcttggatcgttatactctcagGCATGTTCCGGCGCGGTTCACTGCCAGCTTCTCGATGCCGCTCATCCAGGGATCGTGCCTATGCACAAGGTCAATTTCGACGCCAAGAGCGAGTATGAGA
            ttcttac  putative branch site (score: 2)
                                              tactctc  putative PPT
                         ttctatttt  TA-rich tract