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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtaggaatgtccttcattgtgttctatacttgtgtattgccttttttttcttttccgtgtgtgtgtgcttaggtttaatgttttttgttttctaatgtgcagacattaagttagggagcttgtttatttgtgtcctctttcttctaaggaatctatttttgaattcagGGAAGTGGTTCTTTGAATGAGCTAATCGGTGTGAAAAGGTTTCTGGTAGCTTTGGATGAATTGGGATTGTCTGGATTTGAATTGTCAGACCTGGAGCAG

Basic information

species Glycine max
transcript GLYMA08G01800.1
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|193490545|gb|FK453388.1|FK453388
EST:     GATCTGTATTATGCAGCATTTTGGACAATCTTGTTCCTGGTTCGGTGAAG                         GGAAGTGGTTCTTTGAATGAGCTAATCGGTG
genomic: GATCTGTATTATGCAGCATTTTGGACAATCTTGTTCCTGGTTCGGTGAAGgtagtaggaa ... ttgaattcagGGAAGTGGTTCTTTGAATGAGCTAATCGGTG
EST: gi|193422084|gb|FK386757.1|FK386757
EST:     GATCTGTATTATGCAGCATTTTGGACAATCTTGTTCCTGGTTCGGTGAAG                         GGAAGTGGTTCTTTGAATGAGCTAATCGGTGTGAAAAGGTTTCTGGTAGCT
genomic: GATCTGTATTATGCAGCATTTTGGACAATCTTGTTCCTGGTTCGGTGAAGgtagtaggaa ... ttgaattcagGGAAGTGGTTCTTTGAATGAGCTAATCGGTGTGAAAAGGTTTCTGGTAGCT
EST: gi|208245014|gb|GE039881.1|GE039881
EST:     GATCTGTATTATGCAGCATTTTGGACAATCTCGTTCCTGGTTCGGTGAAG                         GGAAGTGGTTCTTTGAATGAGCTAATCGGTGTGAAAAGGTTTCTGGTAGCT
genomic: GATCTGTATTATGCAGCATTTTGGACAATCTTGTTCCTGGTTCGGTGAAGgtagtaggaa ... ttgaattcagGGAAGTGGTTCTTTGAATGAGCTAATCGGTGTGAAAAGGTTTCTGGTAGCT
EST: gi|208181415|gb|GD974668.1|GD974668
EST:     GATCTGTATTATGCAGCATTTTGGACAATCTTGTTCCTGGTTCGGTGAAG                         GGAAGTGGTTCTTTGAA
genomic: GATCTGTATTATGCAGCATTTTGGACAATCTTGTTCCTGGTTCGGTGAAGgtagtaggaa ... ttgaattcagGGAAGTGGTTCTTTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggagcttgtttatttgtgtcctctttcttctaaggaatctatttttgaattcagGGAAGTGGTTCTTTGAATGAGCTAATCGGTGTGAAAAGGTTTCTGGTAGCTTTGGATGAATTGGGATTGTCTGGATTTGAATTGTCAGACCTGGAGCAG
                                      tctattttt  CT-rich tract
                                    aatctatttttgaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtaggaatgtccttcattgtgttctatacttgtgtattgccttttttttcttttccgtgtgtgtgtgcttaggtttaatgttttttgttttctaatgtgcagacattaagttagggagcttgtttatttgtgtcctctttcttctaaggaatctatttttgaattcagGGAAGTGGTTCTTTGAATGAGCTAATCGGTGTGAAAAGGTTTCTGGTAGCTTTGGATGAATTGGGATTGTCTGGATTTGAATTGTCAGACCTGGAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG