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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttcatactctgaccataaatcttatctgaagttaacttaagttggtggaaaatcacaaagcagttggatcctgcttgtctgatttatgtatctcattggtttacttcttttcttcacgtgtctcattctctcttgatttgaatatgtaatgcagGAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGTTACTGGTGCAGCAAAAAAGCAAGTTAAGGAGAAGTCTTCAGTTTCAAAC

Basic information

species Glycine max
transcript GLYMA16G00680.1
intron # 3
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|193459770|gb|FK422591.1|FK422591
EST:     GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAG                         GAAACGGCTTTTCAACATGATCAATGAA
genomic: GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAGgtatttcata ... tgtaatgcagGAAACGGCTTTTCAACATGATCAATGAA
EST: gi|192310431|gb|FG999496.1|FG999496
EST:     GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAG                         GAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT
genomic: GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAGgtatttcata ... tgtaatgcagGAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT
EST: gi|19452870|gb|BM954280.1|BM954280
EST:     GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAG                         GAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT
genomic: GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAGgtatttcata ... tgtaatgcagGAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT
EST: gi|192333105|gb|FK026434.1|FK026434
EST:     GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAG                         GAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT
genomic: GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAGgtatttcata ... tgtaatgcagGAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT
EST: gi|33387896|gb|CA851103.1|CA851103
EST:     GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAG                         GAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT
genomic: GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAGgtatttcata ... tgtaatgcagGAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT
EST: gi|18039170|gb|BM307464.1|BM307464
EST:     GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAG                         GAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT
genomic: GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAGgtatttcata ... tgtaatgcagGAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT
EST: gi|151408751|gb|EV278559.1|EV278559
EST:     GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAG                         GAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT
genomic: GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAGgtatttcata ... tgtaatgcagGAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT
EST: gi|192300250|gb|FG989372.1|FG989372
EST:     GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAG                         GAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT
genomic: GCTATTGCATTCTATTTTGGAGCCAGATTTGGGTTTGATAAAGCTGACAGgtatttcata ... tgtaatgcagGAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttacttcttttcttcacgtgtctcattctctcttgatttgaatatgtaatgcagGAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGTTACTGGTGCAGCAAAAAAGCAAGTTAAGGAGAAGTCTTCAGTTTCAAAC
                               tcttgat  putative branch site (score: 4)
                                    atttgaatatgtaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatttcatactctgaccataaatcttatctgaagttaacttaagttggtggaaaatcacaaagcagttggatcctgcttgtctgatttatgtatctcattggtttacttcttttcttcacgtgtctcattctctcttgatttgaatatgtaatgcagGAAACGGCTTTTCAACATGATCAATGAACTGCCAACAATATTTGAAGTTGTTACTGGTGCAGCAAAAAAGCAAGTTAAGGAGAAGTCTTCAGTTTCAAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT