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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAAACACCTGATGCGAACGTTTTAGATACCGAGCTTAGTAATCGTCGAAGTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgcatatcttatgatgaaatgttaatgtaatgtacggatgtattgcttctttcctcatgccactgttattttcag

Basic information

species Glycine max
transcript GLYMA03G42260.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G42260.2 (Glycine max), 5'ss of exon 7
lower sequence: Vv15s0048g02410.t01 (Vitis vinifera), 5'ss of exon 5
CAAAACACCTGATGCGAACGTTTTAGATACCGAGCTTAGTAATCGTCGAAGTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAGgta-tgattgcatatcttatgatgaaatgttaatgtaatgtacggatgtattgcttctttcctcatgccactgttattttcag
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CAAAGAAGCTGATGTAAATCAGGCAGCTGGTGAGGCTAACAATCGCCGTTGTAGAAGCACCAGCATCCTTAATGAATCCTGGAAGGAGGTCTCTGAAGAGgtaatgggcaaatctctaatgat--attctttctgca-tatcttgccgcaa-gttcttatgttaacctgactgacatgc-cag
















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|19053378|gb|BM732045.1|BM732045
EST:     GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAG                         GGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
genomic: GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
EST: gi|27426216|gb|CA937736.1|CA937736
EST:     GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAG                         GGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
genomic: GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
EST: gi|31307657|gb|CD392860.1|CD392860
EST:     GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAG                         GGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
genomic: GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
EST: gi|31462534|gb|CD404562.1|CD404562
EST:     CTGATTCTTGGAAGGAGGTCTCTGAAGAG                         GGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
genomic: CTGATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
EST: gi|31472754|gb|CD414782.1|CD414782
EST:     AGGAGGTCTCTGAAGAG                         GGCCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
genomic: AGGAGGTCTCTGAAGAGgtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
EST: gi|9903327|gb|BE612295.1|BE612295
EST:     GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAGG                         GGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAG
genomic: GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGA-Ggtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAG
EST: gi|31457956|gb|CD399984.1|CD399984
EST:     GATTCTTGGAAGGAGGTCTCTGAAGAG                         GGGC-GCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
genomic: GATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
EST: gi|9258405|gb|BE346552.1|BE346552
EST:     GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAG                         GGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
genomic: GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
EST: gi|31475604|gb|CD417632.1|CD417632
EST:     TGATTCTTGGAAGGAGGTCTCTGAAGAG                         GGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
genomic: TGATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
EST: gi|31466877|gb|CD408905.1|CD408905
EST:     GTAGAAGCATTAGCAACCTTACTGATTCTTGTAAGGAGGTCTCTGAAGAG                         GGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
genomic: GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
EST: gi|6915897|gb|AW397427.1|AW397427
EST:     GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAG                         GGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
genomic: GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
EST: gi|23064253|gb|BU579026.1|BU579026
EST:     GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAG                         GGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
genomic: GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
EST: gi|209727103|gb|BW655195.1|BW655195
EST:     GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAG                         GGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
genomic: GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCACAAAGC
EST: gi|193572210|gb|FK529983.1|FK529983
EST:     GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAG                         GGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCAC
genomic: GTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgc ... ttattttcagGGGCGGCTTGCCTTTCAGGCTCTATTCTCCAGAGAGGTGTTGCCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAAACACCTGATGCGAACGTTTTAGATACCGAGCTTAGTAATCGTCGAAGTAGAAGCATTAGCAACCTTACTGATTCTTGGAAGGAGGTCTCTGAAGAGgtatgattgcatatcttatgatgaaatgttaatgtaatgtacggatgtattgcttctttcctcatgccactgttattttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA