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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggaaattagtatccaaagacttcgctttttggaatgaatgattgcgtttgatgttactagtttatttgtctggttttgattttctttgtgtttcttgaagCTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCATTTAGATTAACACATGCAATTCCTGGAGCATCTAAAATTCTGGACTATG

Basic information

species Glycine max
transcript GLYMA16G18450.1
intron # 9
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|208200783|gb|GD996980.1|GD996980
EST:     CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAG                         CTGCCGTGGTCTTTCATTTCTGC
genomic: CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAGgtaacaaatg ... tttcttgaagCTGCTGTGGTCTTTCATTTCTGC
EST: gi|193594997|gb|FK546814.1|FK546814
EST:     CGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAG                         CTGCTGTGGTCTTTCACTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
genomic: CGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAGgtaacaaatg ... tttcttgaagCTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
EST: gi|6848849|gb|AW351139.1|AW351139
EST:     CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAG                         CTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
genomic: CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAGgtaacaaatg ... tttcttgaagCTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
EST: gi|208062977|gb|GD860879.1|GD860879
EST:     CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAG                         CTGCCGTGGTTCTTT
genomic: CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAGgtaacaaatg ... tttcttgaagCTGCTGTGGT-CTTT
EST: gi|208087897|gb|GD886055.1|GD886055
EST:     GCCGGGTTCAGCGAAACTTCTTTACGCACTGATCCAATTCAG                         CTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
genomic: GCCGGGTTCAGCGAAACTTC-TTACGCACTGATCCAATTCAGgtaacaaatg ... tttcttgaagCTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
EST: gi|58018629|gb|CX705371.1|CX705371
EST:     CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAG                         CTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
genomic: CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAGgtaacaaatg ... tttcttgaagCTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
EST: gi|22931593|gb|BU548732.1|BU548732
EST:     CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAG                         CTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
genomic: CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAGgtaacaaatg ... tttcttgaagCTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
EST: gi|208094528|gb|GD897039.1|GD897039
EST:     CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAG                         CTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
genomic: CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAGgtaacaaatg ... tttcttgaagCTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
EST: gi|193617535|gb|FK568873.1|FK568873
EST:     ACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAG                         CTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
genomic: ACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAGgtaacaaatg ... tttcttgaagCTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
EST: gi|208309380|gb|GE106798.1|GE106798
EST:     TGATCCAATTCAG                         CTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
genomic: TGATCCAATTCAGgtaacaaatg ... tttcttgaagCTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
EST: gi|208061120|gb|GD859170.1|GD859170
EST:     CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAG                         CTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA
genomic: CAGATGGACGCCGGGTTCAGCGAAACTTCTTACGCACTGATCCAATTCAGgtaacaaatg ... tttcttgaagCTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttgatgttactagtttatttgtctggttttgattttctttgtgtttcttgaagCTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCATTTAGATTAACACATGCAATTCCTGGAGCATCTAAAATTCTGGACTATG
                            ttttgat  putative branch site (score: 4)
                                  ttttctttgtgtttct  CT-rich tract
        ttactagtttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggaaattagtatccaaagacttcgctttttggaatgaatgattgcgtttgatgttactagtttatttgtctggttttgattttctttgtgtttcttgaagCTGCTGTGGTCTTTCATTTCTGCTCAACTAGGGGAAGATGAAACAAATTCATTTAGATTAACACATGCAATTCCTGGAGCATCTAAAATTCTGGACTATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - atccaaa
- - - - - - - - - - - - - - - ggaatga
- - - - - - - - - - - - - - - - - - - tgattgc
- - - - - - - - - - - - - - - - - - - - - - - - tgatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgtctg