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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTTGGATGCTGTTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATGgtatgttattctttcaatgttatttcatttgagtgctcctaaactaaaacaatattttatttatctgaattgattgatgtttatgtttatgctttggcag

Basic information

species Glycine max
transcript GLYMA20G16170.1
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G16170.1 (Glycine max), 5'ss of exon 16
lower sequence: Vv02s0025g02160.t01 (Vitis vinifera), 5'ss of exon 17
GATTTGGATGCTGTTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATGgtatgtta--ttctttcaatgttatttc-------atttgagtgctcctaa---actaaaacaat-attttatttatctgaattga-----ttgatgtttatgtttatgctttggcag------------------------------------
|||||||||||||| ||||| || |||||||| ||||| ||||||||||||||| | ||||||||||  ||  || ||||    | ||| |       |  || || |  | ||   | | |  |||| |   ||   ||| | |||       |||||   | | | |||  |||  |||                                    
GATTTGGATGCTGTGGAGGCACTGATTCAAGGCCTTGTTCTGTTCCAAGGAGGCGTACTCATGgtattctaccttttttcttcatgattcctattcgcaactgtgtacatcaaagacaatgagtcaatgacaataacaatcagcattcccttccttgatagatgtttctatattttctcaggattaattctatatgcacatgtttttctaattgcag
















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|208216058|gb|GE008966.1|GE008966
EST:     TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATG                         GTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
genomic: TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATGgtatgttatt ... gctttggcagGTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
EST: gi|5606679|gb|AI900777.1|AI900777
EST:     TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATG                         GTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
genomic: TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATGgtatgttatt ... gctttggcagGTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
EST: gi|10232016|gb|BE800904.1|BE800904
EST:     TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATG                         GTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGAC
genomic: TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATGgtatgttatt ... gctttggcagGTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
EST: gi|10254011|gb|BE821777.1|BE821777
EST:     TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATG                         GTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
genomic: TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATGgtatgttatt ... gctttggcagGTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
EST: gi|192322574|gb|FK014695.1|FK014695
EST:     TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATG                         GTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
genomic: TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATGgtatgttatt ... gctttggcagGTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
EST: gi|213602529|gb|DB984095.1|DB984095
EST:     TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATG                         GTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
genomic: TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATGgtatgttatt ... gctttggcagGTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
EST: gi|15286165|gb|BI470056.1|BI470056
EST:     TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATG                         GTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
genomic: TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATGgtatgttatt ... gctttggcagGTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
EST: gi|208231449|gb|GE029424.1|GE029424
EST:     TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATG                         GTGAGTCACGATGAGCGTCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
genomic: TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATGgtatgttatt ... gctttggcagGTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
EST: gi|213589625|gb|DB982658.1|DB982658
EST:     TTGAGGCGCTTATTCAAAATCTTGTGCTGTTCCAAGGAGGCATTCTCATG                         GTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT
genomic: TTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATGgtatgttatt ... gctttggcagGTGAGTCACGATGAGCATCTCATCTCTGGAAGCGTGGAGGAACTATGGGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATTTGGATGCTGTTGAGGCGCTTATTCAAGGTCTTGTGCTGTTCCAAGGAGGCATTCTCATGgtatgttattctttcaatgttatttcatttgagtgctcctaaactaaaacaatattttatttatctgaattgattgatgtttatgtttatgctttggcag

- - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - AAGGAG