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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgatacattgaggtcccctcttaagatttcaatgtcatattatgaaattgtgctaggcatcttattaattagtttttggtgttgcattggctaattagCTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGTATAAAGGGGTAGACTGTGAAGATGGGGGTCCCTTTGGTGCTATTATAGT

Basic information

species Glycine max
transcript GLYMA09G09430.6
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|254348661|gb|GR852340.1|GR852340
EST:     CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAG                         CTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
genomic: CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAGgtaatgcttc ... ggctaattagCTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
EST: gi|254323218|gb|GR840023.1|GR840023
EST:     CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAG                         CTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
genomic: CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAGgtaatgcttc ... ggctaattagCTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
EST: gi|23729280|gb|BU762725.1|BU762725
EST:     CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAG                         CTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
genomic: CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAGgtaatgcttc ... ggctaattagCTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
EST: gi|15001075|gb|BI321889.1|BI321889
EST:     CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAG                         CTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
genomic: CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAGgtaatgcttc ... ggctaattagCTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
EST: gi|9899108|gb|BE608076.1|BE608076
EST:     CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAG                         CTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
genomic: CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAGgtaatgcttc ... ggctaattagCTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
EST: gi|22521736|gb|BU080547.1|BU080547
EST:     CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAG                         CTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
genomic: CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAGgtaatgcttc ... ggctaattagCTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
EST: gi|254332220|gb|GR843804.1|GR843804
EST:     CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAG                         CTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
genomic: CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAGgtaatgcttc ... ggctaattagCTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
EST: gi|6482826|gb|AW202038.1|AW202038
EST:     TTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAG                         CTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
genomic: TTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAGgtaatgcttc ... ggctaattagCTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
EST: gi|6482422|gb|AW201683.1|AW201683
EST:     CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAG                         CTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT
genomic: CAAGAATGGAACTGTTTCAGTAGCTTCTGCGTTTGCTGGCCATAAGGAAGgtaatgcttc ... ggctaattagCTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaattgtgctaggcatcttattaattagtttttggtgttgcattggctaattagCTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGTATAAAGGGGTAGACTGTGAAGATGGGGGTCCCTTTGGTGCTATTATAGT
                   tattaat  putative branch site (score: 2)
               atcttattaattagtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgatacattgaggtcccctcttaagatttcaatgtcatattatgaaattgtgctaggcatcttattaattagtttttggtgttgcattggctaattagCTATACAGCAAAGGGACCACAAATTTTTAAGAATTGCTGTTGAAGAAGCGTATAAAGGGGTAGACTGTGAAGATGGGGGTCCCTTTGGTGCTATTATAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG