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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttttgccattttttttccaagtaatttagtaggcatatttgcttttgtattaatggattgcctattcatttactaacgtaacctgaaatactgttagATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACTATGATGAATTTCTTAAAGTCAAAGAGCTGCAACAGAGGGGTTCTCTTGA

Basic information

species Glycine max
transcript GLYMA16G31990.1
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|151410315|gb|EV280130.1|EV280130
EST:     TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATG                         ATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
genomic: TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATGgtattgtact ... atactgttagATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
EST: gi|19269569|gb|BM885825.1|BM885825
EST:     TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATG                         ATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
genomic: TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATGgtattgtact ... atactgttagATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
EST: gi|298197148|gb|HO041891.1|HO041891
EST:     TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATG                         ATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
genomic: TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATGgtattgtact ... atactgttagATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
EST: gi|192328311|gb|FK020022.1|FK020022
EST:     TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATG                         AT----A----G---G-AACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
genomic: TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATGgtattgtact ... atactgttagATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
EST: gi|13563106|gb|BG551326.1|BG551326
EST:     TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATG                         ATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
genomic: TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATGgtattgtact ... atactgttagATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
EST: gi|13480069|gb|BG509412.1|BG509412
EST:     TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATG                         ATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
genomic: TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATGgtattgtact ... atactgttagATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
EST: gi|207771520|gb|GD744255.1|GD744255
EST:     TTGGACATCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATG                         ATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
genomic: TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATGgtattgtact ... atactgttagATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
EST: gi|15204601|gb|BI427369.1|BI427369
EST:     TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATG                         ATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT
genomic: TTGGACGTCATCTGAGGATGAGCCAGAAGCAATGGAGCAAGATGATGATGgtattgtact ... atactgttagATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgtattaatggattgcctattcatttactaacgtaacctgaaatactgttagATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACTATGATGAATTTCTTAAAGTCAAAGAGCTGCAACAGAGGGGTTCTCTTGA
                    tattcatttactaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attttttgccattttttttccaagtaatttagtaggcatatttgcttttgtattaatggattgcctattcatttactaacgtaacctgaaatactgttagATTCTGAAACAGATAGGAACTTGAGTTTTAAAGAGCACAGAAAGGCCCACTATGATGAATTTCTTAAAGTCAAAGAGCTGCAACAGAGGGGTTCTCTTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- -ttttgcc
- - - - - - - - - -ccaagta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gattgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acctgaa