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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtaagtgagtattcgcattttcaatcttaattatatattggatgcaaaaattatagtttattttattattttgtgcttttatttaatagTGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTCACGTTGCGATGGCACCTCAGAGAGCCAAGCCATTCTATGCCTCTTTAGT

Basic information

species Glycine max
transcript GLYMA13G30670.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G30670.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g14040.1 (Oryza sativa), 3'ss of exon 4
------gtga-gtaagtgagtattcgcattttcaatcttaattatatattggatgcaaaaa-----ttatagtttattttattattttgtgcttttatttaatagTGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTCACGTTGCGATGGCACCTCAGAGAGCCAAGCCATTCTATGCCTCTTTAGT
      || |  |||   || |||   | |  ||   || |  ||   |  | || |  |      || |  || |     ||| |  |    | || |    ||| ||||| ||||| || |||||| |||||||||||||||| || |||||||| || || ||| |||||   | ||| |||||||||||||| ||||||||
gtaggagtaatataatacagcatttctagtcccagatttgaaaattcttaagctgtagtagctttgttgttattgacaccgttactaagctgatatactattcagTCAGTCAATTTACCTTATATGGAATCCTGAAGGGTAACAAGCCAGATTTTCATGTGGCTATGCCACCTGCTAAAGCAAAGCCATTCTATGCTTCTTTAGT

upper sequence: GLYMA13G30670.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0003g00640.t01 (Vitis vinifera), 3'ss of exon 5
gtgagtaagtgagtattcgcattttcaat---cttaattatatattggatgcaaaaattatagtttattttattattttg----tgcttttatttaatagTGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTCACGTTGCGATGGCACCTCAGAGAGCCAAGCCATTCTATGCCTCTTTAGT
     ||| |   |    | ||  | ||       |   | | |   |||  | || |        ||||||   || |     || ||   | |   ||||||||||||||| ||||||||| |  ||||||||||||| || |||||||| || || ||| | || || | ||| ||||| || ||||| || || ||
agttctaaattgcttcaagtatcatgaaagagtgaagggagaaaaatgatatacaagtggagtggcattttacagttctaatgctgtttgggtgtttcagTGAGTCAGTTTACATTGTATGGAATTTTGAAGGGTAACAAGCCAGATTTTCATGTGGCAATGCCGCCCCAAAAAGCAAAGCCCTTTTATGCTTCGTTCGT
















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|298199178|gb|HO042541.1|HO042541
EST:     CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGG                         TGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC
genomic: CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGGgtgagtaagt ... tatttaatagTGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC
EST: gi|207754888|gb|GD727341.1|GD727341
EST:     CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGG                         TGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC
genomic: CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGGgtgagtaagt ... tatttaatagTGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC
EST: gi|13478787|gb|BG508130.1|BG508130
EST:     CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGG                         TGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC
genomic: CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGGgtgagtaagt ... tatttaatagTGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC
EST: gi|193465651|gb|FK433312.1|FK433312
EST:     CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGG                         TGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC
genomic: CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGGgtgagtaagt ... tatttaatagTGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC
EST: gi|298182728|gb|HO031463.1|HO031463
EST:     CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGG                         TGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC
genomic: CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGGgtgagtaagt ... tatttaatagTGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC
EST: gi|208305147|gb|GE102820.1|GE102820
EST:     CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGG                         TGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC
genomic: CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGGgtgagtaagt ... tatttaatagTGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC
EST: gi|298166730|gb|HO010169.1|HO010169
EST:     CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGG                         TGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC
genomic: CAAAGCGTGGGACCACAGTGTAATGCAGAAAAATTATCAAGTTTTGTTGGgtgagtaagt ... tatttaatagTGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atattggatgcaaaaattatagtttattttattattttgtgcttttatttaatagTGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTCACGTTGCGATGGCACCTCAGAGAGCCAAGCCATTCTATGCCTCTTTAGT
                                         cttttattt  CT-rich tract
           aaaaattatagtttat  TA-rich tract