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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttaataaatatttacttaaacttgagtttttttatatatactttgagttgacattttcagccatttctgataagttattctctgtctgtattgccagTGTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCTGGGAATGCTGTGGTTCTAAAACCATCAGAAATTGCTCCTGCCTCATCATCATTATTATTAAA

Basic information

species Glycine max
transcript GLYMA06G12010.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G12010.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G060800_T02 (Zea mays), 3'ss of exon 2
gtatgttaataaatatttacttaaacttgagtttttttatatatactttgagttgac--attttcagccatttctgataagttattctctgtctgtattgccagTGTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCTGGGAATGCTGTGGTTCTAAAACCATCAGAAATTGCTCCTGCCTCATCATCATTATTATTAAA
  |    |||  ||  ||        | || ||||  |  |         ||  ||   |     ||    | || || |  | | || ||||   | ||  |||  | ||| | || |||||| ||||||| || |||||||| |||||||| ||||| || ||||||||||| || || ||  | || ||| | |||  |||
aaagaacaatcgatgctttggcctgatagacttttcctcgacgagtcaaaagaagaagaaaaaagagagggtactaattacctgtact-tgtcc--actgt-agTACTCTCTATCGACCCAGTCATTGGAGCAATCGCTGCTGGAAATGCTGTTGTTCTGAAGCCATCAGAAATAGCGCCAGCTACCTCGTCACTGTTAGCAAA

upper sequence: GLYMA06G12010.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G44170.3 (Arabidopsis thaliana), 3'ss of exon 3
gtatgttaataaatatttacttaaacttgagttt-ttttatatatactttgagttgacattttcagccatttctgataagttattctctgtctgtattgccagTGTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCTGGGAATGCTGTGGTTCTAAAACCATCAGAAATTGCTCCTGCCTCATCATCATTATT-ATTAAA
             ||| | |  |    ||| |   |||||  ||||  ||   || |||||||     |  | ||| |  || || | |     | |||| |||||||||| ||||||| ||  |||| || ||  |||||||||||||||| ||| |||| ||||||||| | ||||| || || ||| |  |  | | ||| 
------------gtatgttccgatcactgattaagttttaactataagttatatt-acattttgtatgaagtgtgacactttttttttt-----ttttgcaagTGTTGTCTATTGATCCTGTTATTGGTGCAATTTCTGCTGGGAATGCTGTTGTTTTAAAGCCATCAGAATTGGCTCCAGCTTCGTCAGCTCTGCTCACTAA-

upper sequence: GLYMA06G12010.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv18s0001g02440.t01 (Vitis vinifera), 3'ss of exon 5
gtatgttaataa-atatttacttaaacttgagttttttta---tatatactttgagttgacattttcagccatttctgataagttattctctgtctgtattgccagTGTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCTGGGAATGCTGTGGTTCTAAAACCATCAGAAATTGCTCCTGCCTCATCATCATT-ATTATTAAA
  | |||| ||   |  ||    |   |||| | | ||||   | |||     |  || | ||||| ||| ||   |  | | || | |  | ||| | || ||||||||  |||||||||||| | |||||||||| || ||||| |||||||||||| | |||||||||||| ||  ||||||| | || ||||| |||   || 
-caagttattatcgtgattgaccat-tttgaatctctttaagttgtatggacaggattca-atttttagcaataatt--ttatttgtacaatctctct-ttcccagTGTTAGCTCTTGATCCAGCCATTGGAGCTATTGCAGCTGGTAATGCTGTGGTTTTGAAACCATCAGAACTTTGTCCTGCCACTTCCTCATTGATTGCCAA-

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|209699810|gb|BW661120.1|BW661120
EST:     TGAACCACTGGGTGTTGTGTTGGTCATCTCTGCATGGAACTATCCAATTT                         TGTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCTGGGAATGCTGTGG
genomic: TGAACCACTGGGTGTTGTGTTGGTCATCTCTGCATGGAACTATCCAATTTgtatgttaat ... gtattgccagTGTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCTGGGAATGCTGTGG
EST: gi|213616764|gb|DB971261.1|DB971261
EST:     TGAACCACTGGGTGTTGTGTTGGTCATCTCTGCATGGAACTATCCAATTT                         TGTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCTGGGAATGCTGTGG
genomic: TGAACCACTGGGTGTTGTGTTGGTCATCTCTGCATGGAACTATCCAATTTgtatgttaat ... gtattgccagTGTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCTGGGAATGCTGTGG
EST: gi|254319120|gb|GR828848.1|GR828848
EST:     GGAACTATCCAATTT                         TGTTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCTGGGAATGCTGTG
genomic: GGAACTATCCAATTTgtatgttaat ... gtattgccagTG-TTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCTGGGAATGCTGTG
EST: gi|254317849|gb|GR826833.1|GR826833
EST:     TGAACCACTGGGTGTTGTGTTGGTCATCTCTGCATGGAACTATCCAATTT                         TGTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCTGGGAATGCTGTGG
genomic: TGAACCACTGGGTGTTGTGTTGGTCATCTCTGCATGGAACTATCCAATTTgtatgttaat ... gtattgccagTGTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCTGGGAATGCTGTGG
EST: gi|213591368|gb|DB955716.1|DB955716
EST:     TGAACCACTGGGTGTTGTGTTGGTCATCTCTGCATGGAACTATCCAATTT                         TGTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCT
genomic: TGAACCACTGGGTGTTGTGTTGGTCATCTCTGCATGGAACTATCCAATTTgtatgttaat ... gtattgccagTGTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgagttgacattttcagccatttctgataagttattctctgtctgtattgccagTGTTGTCTCTTGATCCAGTCGTTGGAGCTATAGCTGCTGGGAATGCTGTGGTTCTAAAACCATCAGAAATTGCTCCTGCCTCATCATCATTATTATTAAA
                      ttctgat  putative branch site (score: 3)
                           ataagttatt  TA-rich tract