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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaggatattttttccttgaattggtttaattaacttattaatattattcaaatcgagtatctcttctcatgtattttctcaattctagGAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAAGGTCCTGCAAAGAATAAGAATGCAAAGCCACCAAGCCCCAGAGGCAGTC

Basic information

species Glycine max
transcript GLYMA06G07190.1
intron # 2
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|213600837|gb|DB956229.1|DB956229
EST:     AGGAAGGATCAAACGATAATATATATATGAACAATGTCACCATTTCTAAG                         GAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA
genomic: AGGAAGGATCAAACGATAATATATATATGAACAATGTCACCATTTCTAAGgtgagaggat ... tcaattctagGAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA
EST: gi|209704026|gb|BW673626.1|BW673626
EST:     AGGAAGGATCAAACGATAATATATATATGAACAATGTCACCATTTCTAAG                         GAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA
genomic: AGGAAGGATCAAACGATAATATATATATGAACAATGTCACCATTTCTAAGgtgagaggat ... tcaattctagGAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA
EST: gi|192317170|gb|FK007895.1|FK007895
EST:     AGGAAGGATCGAACGATAATATATATATGAACAATGTCACCATTTCTAAG                         GAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA
genomic: AGGAAGGATCAAACGATAATATATATATGAACAATGTCACCATTTCTAAGgtgagaggat ... tcaattctagGAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA
EST: gi|213593270|gb|DB966095.1|DB966095
EST:     AGGAAGGATCAAACGATAATATATATATGAACAATGTCACCATTTCTAAG                         GAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA
genomic: AGGAAGGATCAAACGATAATATATATATGAACAATGTCACCATTTCTAAGgtgagaggat ... tcaattctagGAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA
EST: gi|192317169|gb|FK007894.1|FK007894
EST:     AGGAAGGATCGAACGATAATATATATATGAACAATGTCACCATTTCTAAG                         GAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA
genomic: AGGAAGGATCAAACGATAATATATATATGAACAATGTCACCATTTCTAAGgtgagaggat ... tcaattctagGAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA
EST: gi|7232481|gb|AW567836.1|AW567836
EST:     AGGAAGGATCAAACGATAATATATATATGAACAATGTCACCATTTCTAAG                         GAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA
genomic: AGGAAGGATCAAACGATAATATATATATGAACAATGTCACCATTTCTAAGgtgagaggat ... tcaattctagGAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA
EST: gi|209723656|gb|BW682761.1|BW682761
EST:     AGGAAGGATCAAACGATAATATATATATGAACAATGTCACCATTTCTAAG                         GAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA
genomic: AGGAAGGATCAAACGATAATATATATATGAACAATGTCACCATTTCTAAGgtgagaggat ... tcaattctagGAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttattaatattattcaaatcgagtatctcttctcatgtattttctcaattctagGAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAAGGTCCTGCAAAGAATAAGAATGCAAAGCCACCAAGCCCCAGAGGCAGTC
  tattaat  putative branch site (score: 2)
                          tctcttctcatgtatt  putative PPT
     taatattattcaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagaggatattttttccttgaattggtttaattaacttattaatattattcaaatcgagtatctcttctcatgtattttctcaattctagGAAGAGGAAGCAGAAATCATAGATCGGACAGAGCAATTAAAAGTAGGAAAAGGTCCTGCAAAGAATAAGAATGCAAAGCCACCAAGCCCCAGAGGCAGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG