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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacttgtgctaaaaaattttgattgactaatgtaatgcataaatatatatgattcttacaactctatttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACACCGCAGGAGCATCTTCTTGCACTTGTGCTGGGCTGCTGGCAAGGCTGTA

Basic information

species Glycine max
transcript GLYMA10G27570.2
intron # 4
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|254343454|gb|GR857158.1|GR857158
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|21257025|gb|BQ453913.1|BQ453913
EST:     AGTGGAAGGAAATCATTGATGTTAACGACTAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|192302214|gb|FG995838.1|FG995838
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|6746805|gb|AW317261.1|AW317261
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|192302215|gb|FG995839.1|FG995839
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|298173651|gb|HO016987.1|HO016987
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAG
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAG
EST: gi|208144739|gb|GD943862.1|GD943862
EST:     CATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: CATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|209710301|gb|BW676363.1|BW676363
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|208207730|gb|GE008057.1|GE008057
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|24136483|gb|BU926993.1|BU926993
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|192304887|gb|FG997069.1|FG997069
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACATCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|6341433|gb|AW164257.1|AW164257
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|193409657|gb|FK375005.1|FK375005
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAA-GGAGCAACAAAGGGTCGGTA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTA
EST: gi|31464266|gb|CD406294.1|CD406294
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|209716295|gb|BW657598.1|BW657598
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCCAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|151400105|gb|EV269919.1|EV269919
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|298175984|gb|HO015389.1|HO015389
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAA
EST: gi|254339730|gb|GR857855.1|GR857855
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|192323520|gb|FK017101.1|FK017101
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|192329523|gb|FK022215.1|FK022215
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|151395269|gb|EV265140.1|EV265140
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTATCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|10238974|gb|BE807862.1|BE807862
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCCACAAAAGGGTCG
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAA-GGGTCG
EST: gi|192295702|gb|FG990556.1|FG990556
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|254339729|gb|GR857854.1|GR857854
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAAGGGTCGGTACACCGTATAAAC
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAA-GGGTCGGTACACCGTATAAAC
EST: gi|209710300|gb|BW676362.1|BW676362
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|192304888|gb|FG997070.1|FG997070
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACATCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|151409238|gb|EV279046.1|EV279046
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACA
EST: gi|192329522|gb|FK022214.1|FK022214
EST:     AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAA
genomic: AGTGGAAGGAAATCATTGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttgt ... tttgctgcagGATGATTCTAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgactaatgtaatgcataaatatatatgattcttacaactctatttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACACCGCAGGAGCATCTTCTTGCACTTGTGCTGGGCTGCTGGCAAGGCTGTA
                               ttcttac  putative branch site (score: 2)
                                        ctctattt  putative PPT
      taatgtaatgcataaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaacttgtgctaaaaaattttgattgactaatgtaatgcataaatatatatgattcttacaactctatttgctgcagGATGATTCTAGAAGCAAAGGAGCAACAAAGGGTCGGTACACCGTATAAACACCGCAGGAGCATCTTCTTGCACTTGTGCTGGGCTGCTGGCAAGGCTGTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT