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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttacctctactgtggtcttcaaaatatctatggacaacatatatagtgatgtgaaaatacaaataactgacacaattgtcttctggtcttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGTAAATCACCACAAATTTCCTTCAAAATAATTGAGTGACTGGTTCAGTGTT

Basic information

species Glycine max
transcript GLYMA07G32190.1
intron # 11
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|208113083|gb|GD912010.1|GD912010
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|11688177|gb|BF595853.1|BF595853
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|193672591|gb|FK615909.1|FK615909
EST:     ATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: ATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|7589757|gb|AW705525.1|AW705525
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|193396217|gb|FK363610.1|FK363610
EST:     ATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: ATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|208047241|gb|GD844338.1|GD844338
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|208221029|gb|GE020699.1|GE020699
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAAACCTAGGAGGATGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAA-CCT-GGAGGATGT
EST: gi|15204849|gb|BI427617.1|BI427617
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|207733012|gb|GD712740.1|GD712740
EST:     ATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: ATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|7691785|gb|AW759906.1|AW759906
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGACGAAGAGAAGCGA                         CAAGCGAAAGCAGCA
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCA
EST: gi|208281234|gb|GE077610.1|GE077610
EST:     AGTGGTCCCTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: AGTGG-CACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|208089275|gb|GD890302.1|GD890302
EST:     GGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|14999814|gb|BI320628.1|BI320628
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGCATGGAGGAAGAGAAACGA                         CCAGCCAAAGCAGCA
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCA
EST: gi|193415327|gb|FK375821.1|FK375821
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGT
EST: gi|20449753|gb|BQ253877.1|BQ253877
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|9260012|gb|BE348159.1|BE348159
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|31561027|gb|CD486865.1|CD486865
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|16346698|gb|BI972293.1|BI972293
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCA
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCA
EST: gi|14011803|gb|BG726725.1|BG726725
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTG
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTG
EST: gi|193730098|gb|FK663084.1|FK663084
EST:     GGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|6481839|gb|AW201110.1|AW201110
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTG
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTG
EST: gi|26269373|gb|CA820436.1|CA820436
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|31475923|gb|CD417951.1|CD417951
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|10237564|gb|BE806452.1|BE806452
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|193396232|gb|FK362729.1|FK362729
EST:     AGCCGGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: AGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|208038294|gb|GD837078.1|GD837078
EST:     ATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: ATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|193303693|gb|FK271669.1|FK271669
EST:     ATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: ATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
EST: gi|10232365|gb|BE801253.1|BE801253
EST:     GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGA                         CAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT
genomic: GAGTGGCACTCTACTCGTTCATCAAAGCCAGGATGGAGGAAGAGAAGCGAgtgagtattg ... ttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtgatgtgaaaatacaaataactgacacaattgtcttctggtcttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGTAAATCACCACAAATTTCCTTCAAAATAATTGAGTGACTGGTTCAGTGTT
                     aactgac  putative branch site (score: 2)
                                           tcttgtt  putative PPT
        tgaaaatacaaataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttacctctactgtggtcttcaaaatatctatggacaacatatatagtgatgtgaaaatacaaataactgacacaattgtcttctggtcttgttgtcagCAAGCGAAAGCAGCATAAGAAGTTGTCAACCTGGAGGATGTCTTGCACTGTAAATCACCACAAATTTCCTTCAAAATAATTGAGTGACTGGTTCAGTGTT

- - - - - actgtgg
- - - - - - - - - - - - - - - - - - - - - - - - tgatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgacac