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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tataacacgtcttatatcatcttcctgttgacaccctattccgccattcagaacgttgctagagttgttcagcgtaaaacaatgaacgttaattttgcagGTTACAAATTTGATGAGCTTGACCGCAACTCTGTCAATTTAAGGTTTCAATTTGCTCGCTATCCTGGTGCAAGGTCAGGTGGCGTGCATCGTGGCAAGCG

Basic information

species Glycine max
transcript GLYMA04G41150.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G41150.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv16s0098g01370.t01 (Vitis vinifera), 3'ss of exon 5
tataacacgtcttatatcatcttcctgttg-acaccctat-tccgccattcagaacgttgctagagttgttca-gcgtaaaacaatgaacgttaattttgcagGTTACAAATTTGATGAGCTTGACCGCAACTCTGTCAATTTAAGGTTTCAATTTGCTCGCTATCCTGGTGCAAGGTCAGGTGGCGTGCATCGTGGCAAGCG
 ||      | | |  |    | ||  ||| ||  |  || ||  |  |||| |||   |   ||||||  || |||||||||| | |   |||||||||||||||| ||||||||||||| ||||||| |||| |||||||||||| ||||||||||||||||||||||||| ||||||||||||| |||||||||||||||
-attgtgtatttgagttgtagtgccaattgcacgtctaatatcttcggttcaaaacacggt--gagttgcgcaagcgtaaaacagtcagaattaattttgcagGTTATAAATTTGATGAGCATGACCGCGACTCGGTCAATTTAAGGCTTCAATTTGCTCGCTATCCTGGTGCGAGGTCAGGTGGCGGGCATCGTGGCAAGCG
















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|192305443|gb|FG998283.1|FG998283
EST:     CGATTTTTTGAGTCCTGCTCATGCAGCAACTGCCATGGAAGCATTGCAGG                         GTTACAAATTTGATGAGCTTGACCGCAACTCTGTCAATTTAAGGTTTCAAT
genomic: CGATTTTTTGAGTCCTGCTCATGCAGCAACTGCCATGGAAGCATTGCAGGgtaaggtctc ... aattttgcagGTTACAAATTTGATGAGCTTGACCGCAACTCTGTCAATTTAAGGTTTCAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcagaacgttgctagagttgttcagcgtaaaacaatgaacgttaattttgcagGTTACAAATTTGATGAGCTTGACCGCAACTCTGTCAATTTAAGGTTTCAATTTGCTCGCTATCCTGGTGCAAGGTCAGGTGGCGTGCATCGTGGCAAGCG
                                         cgttaat  putative branch site (score: 4)
                                           ttaatttt  TA-rich tract