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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttaaatttcttcaactagccccatgatatttacctcacttttttttttcatcctctgttgtctttggattgtgactcatctgatatttgattctcactcaatggcatctccattaatgtagGATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGGCAAACAAAGAGTGGGATTTGCTGATGCTGCATAGAGTGTACGCGTGTCT

Basic information

species Glycine max
transcript GLYMA07G39240.1
intron # 13
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|58015932|gb|CX702674.1|CX702674
EST:     ATTAGTGGCTTTACTGCTATAGATATTCCACCTCCACGTGGCCCTCTCTG                         GATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG
genomic: ATTAGTGGCTTTACTGCTATAGATATTCCACCTCCACGTGGCCCTCTCTGgtacttaaat ... attaatgtagGATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG
EST: gi|9564737|gb|BE474246.1|BE474246
EST:     ATTAGTGGCTTTACTGCTATAGATATTCCACCTCCACGTGGCCCTCTCTG                         GATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG
genomic: ATTAGTGGCTTTACTGCTATAGATATTCCACCTCCACGTGGCCCTCTCTGgtacttaaat ... attaatgtagGATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG
EST: gi|193450707|gb|FK413037.1|FK413037
EST:     ATTAGTGGCTTTACTGCTATAGATATTCCACCTCCACGTGGCCCTCTCTG                         GATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG
genomic: ATTAGTGGCTTTACTGCTATAGATATTCCACCTCCACGTGGCCCTCTCTGgtacttaaat ... attaatgtagGATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG
EST: gi|7588001|gb|AW703806.1|AW703806
EST:     CACGTGGCCCTCTCTG                         GATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG
genomic: CACGTGGCCCTCTCTGgtacttaaat ... attaatgtagGATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG
EST: gi|6341659|gb|AW164483.1|AW164483
EST:     ATTAGTGGCTTTACTGCTATAGATATTCCACCTCCACGTGGCCCTCTCTG                         GATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG
genomic: ATTAGTGGCTTTACTGCTATAGATATTCCACCTCCACGTGGCCCTCTCTGgtacttaaat ... attaatgtagGATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG
EST: gi|22928034|gb|BU545173.1|BU545173
EST:     CACGTGGCCCTCTCTG                         GATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG
genomic: CACGTGGCCCTCTCTGgtacttaaat ... attaatgtagGATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG
EST: gi|57575750|gb|CX548725.1|CX548725
EST:     ATTAGTGGCTTTACTGCTATAGATATTCCACCTCCACGTGGCCCTCTCTG                         GATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG
genomic: ATTAGTGGCTTTACTGCTATAGATATTCCACCTCCACGTGGCCCTCTCTGgtacttaaat ... attaatgtagGATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattgtgactcatctgatatttgattctcactcaatggcatctccattaatgtagGATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGGCAAACAAAGAGTGGGATTTGCTGATGCTGCATAGAGTGTACGCGTGTCT
                                        tctccatt  CT-rich tract
                atatttgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacttaaatttcttcaactagccccatgatatttacctcacttttttttttcatcctctgttgtctttggattgtgactcatctgatatttgattctcactcaatggcatctccattaatgtagGATCCTTGGTGATGTCTTCATGGGGCGTTATCACACAGTATTTGATTTTGGCAAACAAAGAGTGGGATTTGCTGATGCTGCATAGAGTGTACGCGTGTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC