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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatattttgtttactttctagtattttttttgccctaaaatgttattgagattcaagaattgaatgtcagaataagcattttaacattttgtcctcagATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACCACGTGGAAGAACTCCCCCAAG

Basic information

species Glycine max
transcript GLYMA04G07300.1
intron # 15
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|18732854|gb|BM527286.1|BM527286
EST:     CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAG                         ATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAGgtaatatttt ... ttgtcctcagATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|192310390|gb|FK002270.1|FK002270
EST:     CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAG                         ATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAGgtaatatttt ... ttgtcctcagATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|9203730|gb|BE329954.1|BE329954
EST:     TGGAAGAAATGACCGGGACAG                         ATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: TGGAAGAAATGACCGGGACAGgtaatatttt ... ttgtcctcagATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|9203549|gb|BE329773.1|BE329773
EST:     TGGAAGAAATGACCGGGACAG                         ATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: TGGAAGAAATGACCGGGACAGgtaatatttt ... ttgtcctcagATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|20815080|gb|BQ299558.1|BQ299558
EST:     GAAGAAATGACCGGGACAG                         ATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: GAAGAAATGACCGGGACAGgtaatatttt ... ttgtcctcagATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|254314809|gb|GR829802.1|GR829802
EST:     CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAG                         ATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAGgtaatatttt ... ttgtcctcagATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|20815090|gb|BQ299568.1|BQ299568
EST:     GAAGAAATGACCGGGACAG                         ATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: GAAGAAATGACCGGGACAGgtaatatttt ... ttgtcctcagATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|192310391|gb|FK002271.1|FK002271
EST:     GAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAG                         ATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: GAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAGgtaatatttt ... ttgtcctcagATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|22927307|gb|BU544446.1|BU544446
EST:     TACAATGGAAGAAATGACCGGGACAG                         ATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: TACAATGGAAGAAATGACCGGGACAGgtaatatttt ... ttgtcctcagATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
EST: gi|18734340|gb|BM528125.1|BM528125
EST:     CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAG                         ATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC
genomic: CGGTCTCCTGTGAGGTCATACCGCTACAATGGAAGAAATGACCGGGACAGgtaatatttt ... ttgtcctcagATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattgagattcaagaattgaatgtcagaataagcattttaacattttgtcctcagATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACCACGTGGAAGAACTCCCCCAAG
                                   ttttaac  putative branch site (score: 2)
                                           ttttgtcctc  CT-rich tract
                                  attttaacattttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatattttgtttactttctagtattttttttgccctaaaatgttattgagattcaagaattgaatgtcagaataagcattttaacattttgtcctcagATATTCTACTTACAGAAGGTTTTCCCCTAGGCGTTTCAGGAGCCCACCACCACGTGGAAGAACTCCCCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC