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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattgttttaatgttgttgaattgtttgttagcttttctatttaacattggctgtagtgttattttatggcatggttgagatctctctttgctttttcagGTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAGTATGGGGGTTTGCCTCCTACTGCGAATTATCTCTTTTTGGGGGACTACGTGGACCG

Basic information

species Glycine max
transcript GLYMA02G41890.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G41890.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g16110.1 (Oryza sativa), 3'ss of exon 1
tattgttttaatgttgttgaattgtttgttagcttttctattt---aacattggctgtagtgttattttatggcatggttgagatctctctttgctttttcagGTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAGTATGGGGGTTTGCCTCCTACTGCGAATTATCTCTTTTTGGGGGACTACGTGGACCG
     | ||   |   || |||   | || ||| | |  ||||        ||||| ||  ||   | | |  | |  ||   |  | || ||   | | |||||||||| ||||| |||||||||||  |  ||||||| ||||||||||| ||||| || ||    || |||||||| || || || || || || || ||
---cttcttggggagtttcaatctgtagtgagcctgtaaatttgtagctggtggctctaaggtgtgtatttaacttttttttcacttgtcatttggtatccagGTGACATCCATGGTCAGTACAGTGACCTTCTAAGGCTTTTTGAGTATGGTGGTTTTCCCCCAGAAGCCAATTATCTATTCTTAGGTGATTATGTTGATCG

upper sequence: GLYMA02G41890.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G39840.1 (Arabidopsis thaliana), 3'ss of exon 1
tattgttttaatgttgttgaattgtttgttagcttttctatttaacattggct-gtagtgttattttatggcatggttgagatctctctttgctttttcagGTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAGTATGGGGGTTTGCCTCCTACTGCGAATTATCTCTTTTTGGGGGACTACGTGGACCG
 |   || |  ||||| | |      |||  |  ||  |    ||   |  |  ||  ||| ||||  |     | ||| | | |   | |  |    |||||||||| |||||||| || ||||||||||| ||||||||||||||||| || || ||||||| ||| |||||||| ||| | |||||||| |||||| |
gaggcttatcttgttgcttatgatactgtgtgtgttcatgaaaaatcctatcccgttctgtgatttccttatg-gtttgtggtgtacatgtcttaaaccagGTGACATACATGGGCAATATAGTGATTTGTTGAGGCTATTTGAGTATGGTGGCTTCCCTCCTAGTGCCAATTATCTATTTCTTGGGGACTATGTGGACAG

upper sequence: GLYMA02G41890.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0019g02410.t01 (Vitis vinifera), 3'ss of exon 1
---tattgttttaatgttgttgaattgtttgttagcttttctatttaacattggctgtagtgttattttatggcatggttgagatctctctttgctttttcagGTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAGTATGGGGGTTTGCCTCCTACTGCGAATTATCTCTTTTTGGGGGACTACGTGGACCG
   ||   |   ||| ||||   ||   || || |  |||||  | |  |||  ||| | || | |||| ||   | ||  |  |  | ||| |   |||||||||| ||||||||||| |||||||| ||||||||||| ||||| || ||||| || ||||||    | |||||||| ||||| |||||||| ||||| ||
atgtaggatggaaat-ttgtcatatatattttttgagtttcttgtgataattatctggattgat-ttttctgatcttgt-aaatttgcccttggtggtttcagGTGATATTCATGGGCAATACAGTGACTTGTTAAGGCTTTTTGAATACGGGGGGTTTCCTCCTCACACCAATTATCTATTTTTAGGGGACTATGTGGATCG

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|13479796|gb|BG509139.1|BG509139
EST:     CATTAACCAGCCCAATTTGCTTGAACTCGAAGCCCCCATCAAGATTTGTG                         GTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAG-ATGGGG
genomic: CATTAACCAGCCCAATTTGCTTGAACTCGAAGCCCCCATCAAGATTTGTGgtaccccttt ... gctttttcagGTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAGTATGGGG
EST: gi|298181712|gb|HO025887.1|HO025887
EST:     CATTAACCAGCCCAATTTGCTTGAACTCGATGCCCCCATCAAGATTTGTG                         GTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTCGAGTATGGGG
genomic: CATTAACCAGCCCAATTTGCTTGAACTCGAAGCCCCCATCAAGATTTGTGgtaccccttt ... gctttttcagGTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAGTATGGGG
EST: gi|298170561|gb|HO019185.1|HO019185
EST:     CATTAACCAGCCCAATTTGCTTGAACTCGAAGCCCCCATCAAGATTTGTG                         GTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAGTATGGGG
genomic: CATTAACCAGCCCAATTTGCTTGAACTCGAAGCCCCCATCAAGATTTGTGgtaccccttt ... gctttttcagGTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAGTATGGGG
EST: gi|208167315|gb|GD958737.1|GD958737
EST:     CATTAACCAGCCCAATTTGCTTGAACTCGAGGCCCCCATCAAGATTTGTG                         GTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAGTATGGGG
genomic: CATTAACCAGCCCAATTTGCTTGAACTCGAAGCCCCCATCAAGATTTGTGgtaccccttt ... gctttttcagGTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAGTATGGGG
EST: gi|192325314|gb|FK017130.1|FK017130
EST:     CATTAACCAGCCCAATTTGCTTGAACTCGAAGCCCCCATCAAGATTTGTG                         GTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAGTATGGGG
genomic: CATTAACCAGCCCAATTTGCTTGAACTCGAAGCCCCCATCAAGATTTGTGgtaccccttt ... gctttttcagGTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAGTATGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattggctgtagtgttattttatggcatggttgagatctctctttgctttttcagGTGACATTCATGGGCAGTACAGTGATTTGTTAAGGCTATTTGAGTATGGGGGTTTGCCTCCTACTGCGAATTATCTCTTTTTGGGGGACTACGTGGACCG
                                    tctctctttgcttttt  CT-rich tract
         tagtgttattttat  TA-rich tract