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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtaatggtgtgtgttgtgttatatgtttctaacgaagctaaagtttgtcgtgcatgatttgggggacgatttgaattttgtattcagGTATAGCCAGGATAATTGCTGCTTCTGGGTACAGTGTCTTTGCAATGGACTATCCAGGTTTTGGTCTTTCAGAAGGATTGCATGGTTATATACCAAAATT

Basic information

species Glycine max
transcript GLYMA01G19820.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G19820.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0011g03620.t01 (Vitis vinifera), 3'ss of exon 3
-------gtttgtaatggtgtgtgttgtg-ttatatgtttc--taacgaagctaaagtttgtcgtg----catgatttgggggacgatttgaattttgtattcagGTATAGCCAGGATAATTGCTGCTTCTGGGTACAGTGTCTTTGCAATGGACTATCCAGGTTTTGGTCTTTCAGAAGGATTGCATGGTTATATACCAAAATT
       |     ||   || | |      || |    | |  ||   ||| | ||  ||   ||     ||| |||    |||  ||||| || ||     ||||||| || | |  |||||| |||||||||||   ||| | |||  |||||||||||||||||||||| || || ||||| || ||||||||  |||  ||
tagcaacgcaaacaaaaatgagagaaaaaattgttcactccagtattcaagtttaaaatttgtgtaataacattattgtatggagaatttggatctt-----cagGTATTGCGAAGCAAATTGCCGCTTCTGGGTATGCTGTATATGCTTTGGACTATCCAGGTTTTGGTCTATCTGACGGATTACACGGTTATATCTCAAGCTT
















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|26047356|gb|CA784174.1|CA784174
EST:     TGTGTGTTTCTGTCATGGATATGGTGATACTTGCACCTTCTTTTTTGAAG                         GTATAGCCAGGATAATTGCTGCTTCTGGGTAC
genomic: TGTGTGTTTCTGTCATGGATATGGTGATACTTGCACCTTCTTTTTTGAAGgtttgtaatg ... ttgtattcagGTATAGCCAGGATAATTGCTGCTTCTGGGTAC
EST: gi|10845693|gb|BF071169.1|BF071169
EST:     TGTGTGTTTCTGTCATGGATATGGTGATACTTGCACCTTCTTTTATGAAG                         GTATAGCCAGGATACTTGCTGCTTCTGGG
genomic: TGTGTGTTTCTGTCATGGATATGGTGATACTTGCACCTTCTTTTTTGAAGgtttgtaatg ... ttgtattcagGTATAGCCAGGATAATTGCTGCTTCTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgaagctaaagtttgtcgtgcatgatttgggggacgatttgaattttgtattcagGTATAGCCAGGATAATTGCTGCTTCTGGGTACAGTGTCTTTGCAATGGACTATCCAGGTTTTGGTCTTTCAGAAGGATTGCATGGTTATATACCAAAATT
   agctaaa  putative branch site (score: 3)
                                    atttgaattttgtatt  TA-rich tract