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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgaattgatggtagcctatgatataattctaatgaacagggttagacagtttacattattgtcgcttttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGCAGCAGCAGCAGCTACAGAAAGAAGTTGATCCAGCTCACATTGATGATTC

Basic information

species Glycine max
transcript GLYMA01G43700.1
intron # 5
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|193705031|gb|FK641875.1|FK641875
EST:     TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|58020530|gb|CX707272.1|CX707272
EST:     TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|33387576|gb|CA850783.1|CA850783
EST:     TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|58020723|gb|CX707465.1|CX707465
EST:     TATTAACGATGCAGGTCTTTCTCNTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|9901264|gb|BE610232.1|BE610232
EST:     TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|193346277|gb|FK309769.1|FK309769
EST:     TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|208043712|gb|GD843608.1|GD843608
EST:     TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|19052831|gb|BM731498.1|BM731498
EST:     TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|193495231|gb|FK463215.1|FK463215
EST:     TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|9819986|gb|BE555499.1|BE555499
EST:     TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|17963281|gb|BM270032.1|BM270032
EST:     CTTTCTCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: CTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|21255874|gb|BQ452762.1|BQ452762
EST:     TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|193691512|gb|FK627557.1|FK627557
EST:     TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|193679941|gb|FK620697.1|FK620697
EST:     TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TATTAACGATGCAGGTCTTTCTCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
EST: gi|208073073|gb|GD868152.1|GD868152
EST:     TCCTGATAGCATTAAAGGAGATATTACAG                         GCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC
genomic: TCCTGATAGCATTAAAGGAGATATTACAGgttagtgaat ... ttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataattctaatgaacagggttagacagtttacattattgtcgcttttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGCAGCAGCAGCAGCTACAGAAAGAAGTTGATCCAGCTCACATTGATGATTC
    ttctaat  putative branch site (score: 2)
                                       tcgcttttc  putative PPT
                           tttacattatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtgaattgatggtagcctatgatataattctaatgaacagggttagacagtttacattattgtcgcttttcatggcagGCTACAGTGGCAGCTTCACTTCTACCAATTCTTTAGGTATTGCATCTGAGCAGCAGCAGCAGCTACAGAAAGAAGTTGATCCAGCTCACATTGATGATTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA