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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatcttttaataaaaggtatctttccccctaaaacaaatatgctttcaacatgtggttcttttttatcttccctatttgccttctccaaccttacatcagGGAGCAGCAACAACTTGCTATGTAGCATTGCACCCACAAGTGAGGGGAATTAGTGGTGAGTATTTTGCAGATAGTAATATTGCCAAAGCAAACTCACAAG

Basic information

species Glycine max
transcript GLYMA09G25070.1
intron # 6
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|10253531|gb|BE821297.1|BE821297
EST:     GCTGAGTTATGTAGTTAAAAATGTTCAGCAG                         GGAGCAGCAACAACTTGCTATGTAGCATTGCACCCACAAGTGAGGGGAATT
genomic: GCTGAGTTATGTAGTTAAAAATGTTCAGCAGgtaagttaaa ... cttacatcagGGAGCAGCAACAACTTGCTATGTAGCATTGCACCCACAAGTGAGGGGAATT
EST: gi|5677940|gb|AI939070.1|AI939070
EST:     GCTGAGTTATGTAGTTAAAAATGTTCAACAG                         GGAGCAGCAACAACTTGCTATGTAGCATTGCACCCACAAGTGAGGGGAATT
genomic: GCTGAGTTATGTAGTTAAAAATGTTCAGCAGgtaagttaaa ... cttacatcagGGAGCAGCAACAACTTGCTATGTAGCATTGCACCCACAAGTGAGGGGAATT
EST: gi|209720878|gb|BW662604.1|BW662604
EST:     CAGGTGTAGTTAAGAAGTTGCTGAGTTATGTAGTTAAAAATGTTCAGCAG                         GGAGCAGCAACAACTTGCTATGTAGCATTGCACCCACAAGTGAGGGGAATT
genomic: CAGGTGTAGTTAAGAAGTTGCTGAGTTATGTAGTTAAAAATGTTCAGCAGgtaagttaaa ... cttacatcagGGAGCAGCAACAACTTGCTATGTAGCATTGCACCCACAAGTGAGGGGAATT
EST: gi|208244708|gb|GE038917.1|GE038917
EST:     CAGGTGTAGTTAAGAAGTTGCTGAGTTATGTAGTTAAAAATGTTCAGCAG                         GGAGCAGCAACAACTTGCTATGTAGCATTGCACCCACAAGTGAGGGGAATT
genomic: CAGGTGTAGTTAAGAAGTTGCTGAGTTATGTAGTTAAAAATGTTCAGCAGgtaagttaaa ... cttacatcagGGAGCAGCAACAACTTGCTATGTAGCATTGCACCCACAAGTGAGGGGAATT
EST: gi|58022034|gb|CX708775.1|CX708775
EST:     CAGGTGTAGTTAAGAAGTTGCTGAGTTATGTAGTTAAAAATGTTCAGCAG                         GGAGCAGCAACAACTTGCTATGTAGCATTGCACCCACAAGTGAGGGGAATT
genomic: CAGGTGTAGTTAAGAAGTTGCTGAGTTATGTAGTTAAAAATGTTCAGCAGgtaagttaaa ... cttacatcagGGAGCAGCAACAACTTGCTATGTAGCATTGCACCCACAAGTGAGGGGAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaacatgtggttcttttttatcttccctatttgccttctccaaccttacatcagGGAGCAGCAACAACTTGCTATGTAGCATTGCACCCACAAGTGAGGGGAATTAGTGGTGAGTATTTTGCAGATAGTAATATTGCCAAAGCAAACTCACAAG
                                           accttac  putative branch site (score: 3)
           ttcttttttatcttcc  CT-rich tract
           ttcttttttatctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatcttttaataaaaggtatctttccccctaaaacaaatatgctttcaacatgtggttcttttttatcttccctatttgccttctccaaccttacatcagGGAGCAGCAACAACTTGCTATGTAGCATTGCACCCACAAGTGAGGGGAATTAGTGGTGAGTATTTTGCAGATAGTAATATTGCCAAAGCAAACTCACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA