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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgttttcttgaggtcataatgtctggaatttgcactgcgtcaccaatgctcttaccttcactttgacaatatattttattaagtcactatattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATAAAGGAGAGATTTCCTGTGCCTCGCCTGGTTGTTTGTGATCAGCATGGCT

Basic information

species Glycine max
transcript GLYMA16G09260.2
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|208173131|gb|GD971106.1|GD971106
EST:     CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAG                         GCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
genomic: CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAGgtattctttg ... tattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
EST: gi|193391364|gb|FK356025.1|FK356025
EST:     CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAG                         GCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
genomic: CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAGgtattctttg ... tattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
EST: gi|193585102|gb|FK540685.1|FK540685
EST:     CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAG                         GCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
genomic: CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAGgtattctttg ... tattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
EST: gi|208196759|gb|GD995810.1|GD995810
EST:     CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAG                         GCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
genomic: CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAGgtattctttg ... tattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
EST: gi|208197287|gb|GE001533.1|GE001533
EST:     CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAG                         GCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
genomic: CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAGgtattctttg ... tattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
EST: gi|208320537|gb|GE121628.1|GE121628
EST:     CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACGTCAG                         GCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
genomic: CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAGgtattctttg ... tattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
EST: gi|58015502|gb|CX702244.1|CX702244
EST:     CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAG                         GCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
genomic: CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAGgtattctttg ... tattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
EST: gi|208199921|gb|GE000401.1|GE000401
EST:     CATTGCTCAGTGGCGTAAGGCTGG-TCATCATAATGAACCGGAACATCAG                         GCATTTGCTCAATTGCTACT
genomic: CATTGCTCAGTGGCGTAAGGCTGGAT-ATCATAATGAACCGGAACATCAGgtattctttg ... tattttgcagGCATTTGCTCAATTGCTACT
EST: gi|57574357|gb|CX547332.1|CX547332
EST:     CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAG                         GCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
genomic: CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAGgtattctttg ... tattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
EST: gi|208301088|gb|GE098543.1|GE098543
EST:     CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCAGAACATCAG                         GCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
genomic: CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAGgtattctttg ... tattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
EST: gi|207812452|gb|GD785366.1|GD785366
EST:     CATTGCTCAAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAG                         GCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
genomic: CATTGCTC-AGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAGgtattctttg ... tattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
EST: gi|193581172|gb|FK537821.1|FK537821
EST:     CCATTGCACAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAG                         GCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
genomic: CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAGgtattctttg ... tattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
EST: gi|208310719|gb|GE104273.1|GE104273
EST:     CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAG                         GCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA
genomic: CCATTGCTCAGTGGCGTAAGGCTGGATATCATAATGAACCGGAACATCAGgtattctttg ... tattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgctcttaccttcactttgacaatatattttattaagtcactatattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATAAAGGAGAGATTTCCTGTGCCTCGCCTGGTTGTTTGTGATCAGCATGGCT
                 tttgacaatatatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgttttcttgaggtcataatgtctggaatttgcactgcgtcaccaatgctcttaccttcactttgacaatatattttattaagtcactatattttgcagGCATTTGCTCAATTGCTACTAGCTCCTCATGATGATTCAGATTTAATAATAAAGGAGAGATTTCCTGTGCCTCGCCTGGTTGTTTGTGATCAGCATGGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA