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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattccaaattaacttaccattctggattttttttttttattgtgtgtgtgttttttatttttattttttacagaattgagacgagaagtgttatttattttttgaatggcagAGGAATGAGGAAGATGATAGGTCTGTGCCAGCGAACTCAATTAATGGGAATTCGTGTGTCCCCGAGAAGGAGGGCTCGCAAGTTCCGAGCTTTGGTTTGA

Basic information

species Glycine max
transcript GLYMA01G39040.1
intron # 2
splice site 3'
intron type U2

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|6070779|gb|AW100166.1|AW100166
EST:     AGAATTGGATGAGTTCAGCACAGCTTTGGAGCACTCAGAAATCCAAATCG                         AGGAATGAGGAAGATGATAGGTCTGTGCCAGCGAACTCAATTAA
genomic: AGAATTGGATGAGTTCAGCACAGCTTTGGAGCACTCAGAAATCCAAATCGgtaattccaa ... tgaatggcagAGGAATGAGGAAGATGATAGGTCTGTGCCAGCGAACTCAATTAA
EST: gi|6070786|gb|AW100173.1|AW100173
EST:     AGAATTGGATGAGTTCAGCACAGCTCTGGAGCACTCAGAAATCCAAATCG                         AGGAATGAGGAAGATGATAGGTCTGTGCCAGCGAACTCAATTAATG
genomic: AGAATTGGATGAGTTCAGCACAGCTTTGGAGCACTCAGAAATCCAAATCGgtaattccaa ... tgaatggcagAGGAATGAGGAAGATGATAGGTCTGTGCCAGCGAACTCAATTAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttattttttacagaattgagacgagaagtgttatttattttttgaatggcagAGGAATGAGGAAGATGATAGGTCTGTGCCAGCGAACTCAATTAATGGGAATTCGTGTGTCCCCGAGAAGGAGGGCTCGCAAGTTCCGAGCTTTGGTTTGA
                                    tttatttttt  CT-rich tract
                            aagtgttatttatttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattccaaattaacttaccattctggattttttttttttattgtgtgtgtgttttttatttttattttttacagaattgagacgagaagtgttatttattttttgaatggcagAGGAATGAGGAAGATGATAGGTCTGTGCCAGCGAACTCAATTAATGGGAATTCGTGTGTCCCCGAGAAGGAGGGCTCGCAAGTTCCGAGCTTTGGTTTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT