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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTAAGTTCACCAAGACCGGGGTATGTCATGGATTTGTGCTGTGGATTGACTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAGgtcactctcatttccatttccaacattaactaaacctctgaagccccactcttccatctaacacctgtggcaaaaattatagatgatagactaaatcaagactaaagataaaactcatcttgcaaaggatctagaacaatactatgagctattgcttattctttccattttaagattgcag

Basic information

species Glycine max
transcript GLYMA05G04600.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G04600.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv02s0154g00540.t01 (Vitis vinifera), 5'ss of exon 13
GTTAAGTTCACCAAGACCGGGGTATGTCATGGATTTGTGCTGTGGATTGACTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAGgtcactctcatttccatttccaacattaactaaacctctgaagccccactcttccatctaacacctgtggcaaaaattatagatgatagactaaatcaagactaaagataaaactcatcttgcaaaggatctagaacaatactatgagctattgcttattctttccattttaagattgcag
||| | || ||  |||| ||| |||| |||||||| ||||| |||||||| ||||||||||||    | || |    |||  || | ||||| ||||||    || | ||  ||  | ||  |  | |         |    |    |   | |  |  | | |||   | |  |  | |     |  |   ||  |  | ||   |   ||  |  |  |  || ||                                                  
GTTGAATTTACTGAGACTGGGATATGCCATGGATTCGTGCTTTGGATTGATTGGGTGATGGATGCCGAGAACTGCACTGTATTACCTACTGGGCCAGgtatgccttaattttatg-ctaaggtgcatttgcaaaagaattttctttcccgtccttaaggatcagtgtagagacctgcaaagag--gtttgtttcttgttttaactcac--cttgttctatatgggttcag------------------------------------------------
















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|208168513|gb|GD968671.1|GD968671
EST:     TGACTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAG                         ATAGGAGATATTGGAAGCAGGGAGTAAAGCTT
genomic: TGACTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAGgtcactctca ... aagattgcagATAGGAGATATTGGAAGCAGGGAGTAAAGCTT
EST: gi|207784650|gb|GD757757.1|GD757757
EST:     TGACTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAG                         ATAGGAGATATTGGAAGCAGGGAGTAAAGCTTCTTGGAACACCTAGAACAG
genomic: TGACTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAGgtcactctca ... aagattgcagATAGGAGATATTGGAAGCAGGGAGTAAAGCTTCTTGGAACACCTAGAACAG
EST: gi|207809080|gb|GD781714.1|GD781714
EST:     CTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAG                         ATAGGAGATATTGGAAGCAGGGAGTAAAGCTTCTTGGAACACCTAGAACAG
genomic: CTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAGgtcactctca ... aagattgcagATAGGAGATATTGGAAGCAGGGAGTAAAGCTTCTTGGAACACCTAGAACAG
EST: gi|193553500|gb|FK510473.1|FK510473
EST:     TG-CTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAG                         ATAGGAGATATTGGAAGCAGGGAGTAAAGCTTCTTGGAACACCTAGAACAG
genomic: TGACTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAGgtcactctca ... aagattgcagATAGGAGATATTGGAAGCAGGGAGTAAAGCTTCTTGGAACACCTAGAACAG
EST: gi|193592323|gb|FK546591.1|FK546591
EST:     TGACTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAG                         ATAGGAGATATTGGAAGCAGGGAGTAAAGCTTCTTGGAACACCTAGAACAG
genomic: TGACTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAGgtcactctca ... aagattgcagATAGGAGATATTGGAAGCAGGGAGTAAAGCTTCTTGGAACACCTAGAACAG
EST: gi|208132995|gb|GD928674.1|GD928674
EST:     TGACTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAG                         ATAGGAGATATTGGAAGCAGGGAGTAAAGCTTCTTGGAACGCCTAGAACAG
genomic: TGACTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAGgtcactctca ... aagattgcagATAGGAGATATTGGAAGCAGGGAGTAAAGCTTCTTGGAACACCTAGAACAG
EST: gi|193437656|gb|FK400485.1|FK400485
EST:     CAACTGGTCCAG                         ATAGGAGATATTGGAAGCAGGGAGTAAAGCTTCTTGGAACACCTAGAACAG
genomic: CAACTGGTCCAGgtcactctca ... aagattgcagATAGGAGATATTGGAAGCAGGGAGTAAAGCTTCTTGGAACACCTAGAACAG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTAAGTTCACCAAGACCGGGGTATGTCATGGATTTGTGCTGTGGATTGACTGGGTGATGGATTTGCAAAATTCTGTTGTGATATCAACTGGTCCAGgtcactctcatttccatttccaacattaactaaacctctgaagccccactcttccatctaacacctgtggcaaaaattatagatgatagactaaatcaagactaaagataaaactcatcttgcaaaggatctagaacaatactatgagctattgcttattctttccattttaagattgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA