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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGAATTCGAGTAAACCTCACCCTAAGCTCAATGAAAGAATTCTGTCTTCTCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagaccccgattgttttggattttattttttggtcacttttaattataatgaaacatggtttattttttcaaagaaaaaacctattttgtttgtt...

Basic information

species Glycine max
transcript GLYMA11G07530.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G07530.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv04s0023g02050.t01 (Vitis vinifera), 5'ss of exon 1
TGGAATTCGAGTAAACCTCACCCTAAG---CTCAATGAAAGAATTCTGTCTTCTCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagaccccgattgttttggattttattttttggtcacttttaattataatgaaacatggtttattttttcaaagaaaaaacctattttgtttgtt-----------
   | |||| |    ||||| | |      ||||||||||| || || |||||| ||||||||||| || |||||||||| || ||||| ||||||||||||||||  |||   | |  ||      || ||||||  |       ||    |  ||||||   |  ||  || ||||| |  ||  || |||||  |   |            
---ACTTCGGGATTCCCTCATCATGTAGTTCTCAATGAAAGGATCCTTTCTTCTATGTCACGGAGATCTATTGCTGCTCATCCTTGGCATGACTTAGAGATTGgta--cagtttctg--tgcgcccaatattatttact-----tcttggtctccaatgaatggtatttgtttgtttcacatcaa--acttatttaatcgatgcgcaagtaatc
















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|33390382|gb|CA853577.1|CA853577
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|10235681|gb|BE804569.1|BE804569
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|151395789|gb|EV265666.1|EV265666
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|58014268|gb|CX701010.1|CX701010
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|192310085|gb|FK000649.1|FK000649
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|192316515|gb|FK009312.1|FK009312
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|192331258|gb|FK023769.1|FK023769
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|192321263|gb|FK014353.1|FK014353
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|58022382|gb|CX709123.1|CX709123
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATNG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|58017496|gb|CX704238.1|CX704238
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|151402592|gb|EV272405.1|EV272405
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|15661703|gb|BI699074.1|BI699074
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|7686402|gb|AW757050.1|AW757050
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|209729103|gb|BW655080.1|BW655080
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|37996150|gb|CF807739.1|CF807739
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|192333273|gb|FK026154.1|FK026154
EST:     TCTGTCACGGAGAACAGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|15203687|gb|BI426455.1|BI426455
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|11273956|gb|BF324342.1|BF324342
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|21595665|gb|BQ610566.1|BQ610566
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|213596795|gb|DB964086.1|DB964086
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|26057763|gb|CA800677.1|CA800677
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|19452855|gb|BM954265.1|BM954265
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|58017619|gb|CX704361.1|CX704361
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|12689521|gb|BG155857.1|BG155857
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|151406239|gb|EV276054.1|EV276054
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|254336463|gb|GR842642.1|GR842642
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|17022265|gb|BM093299.1|BM093299
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|15814337|gb|BI786612.1|BI786612
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|6481455|gb|AW200726.1|AW200726
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|192316544|gb|FK009313.1|FK009313
EST:     CGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: CGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|9986810|gb|BE660918.1|BE660918
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGATTTAGAGATTG                         GGCCAGGAGCTCCAGCTGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|192294924|gb|FG986647.1|FG986647
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT
EST: gi|209711074|gb|BW676430.1|BW676430
EST:     TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTG                         GGCCAGGAGCTCCAGCAGTTTTCAACTGT
genomic: TCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagac ... gcacatgcagGGCCAGGAGCTCCAGCAGTTTTCAACTGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGAATTCGAGTAAACCTCACCCTAAGCTCAATGAAAGAATTCTGTCTTCTCTGTCACGGAGAACTGTTGCTGCTCACCCCTGGCACGACTTAGAGATTGgtaaacagaccccgattgttttggattttattttttggtcacttttaattataatgaaacatggtttattttttcaaagaaaaaacctattttgtttgtt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agaaaaaa