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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagttgtgaatcatggacctgatgagttgagtttttggtctgttattgaaaggcttggttggagtttccatttgattagGTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGACGGCTGTTCTTCATGCAAGGGGAAATCGAACTTGGTATGCCTCAACAAAC

Basic information

species Glycine max
transcript GLYMA12G10140.1
intron # 2
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|58017532|gb|CX704274.1|CX704274
EST:     CACTTGCGTTTGTCGCAAACAGCACATACACCGTGACAAGTTTTACACTG                         GTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC
genomic: CACTTGCGTTTGTCGCAAACAGCACATACACCGTGACAAGTTTTACACTGgtaagagttg ... atttgattagGTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC
EST: gi|58021465|gb|CX708206.1|CX708206
EST:     CACTTGCGTTTGTCGCAAACAGCACATACACCGTGACAAGTTTTACACTG                         GTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC
genomic: CACTTGCGTTTGTCGCAAACAGCACATACACCGTGACAAGTTTTACACTGgtaagagttg ... atttgattagGTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC
EST: gi|22930630|gb|BU547777.1|BU547777
EST:     CACTTGCGTTTGTCGCAAACAGCACATACACCGTGACAAGTTTTACACTG                         GTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC
genomic: CACTTGCGTTTGTCGCAAACAGCACATACACCGTGACAAGTTTTACACTGgtaagagttg ... atttgattagGTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC
EST: gi|58025311|gb|CX712052.1|CX712052
EST:     CACTTGCGTTTGTCGCAAACAGCACATACACCGTGACAAGTTTTACACTG                         GTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC
genomic: CACTTGCGTTTGTCGCAAACAGCACATACACCGTGACAAGTTTTACACTGgtaagagttg ... atttgattagGTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC
EST: gi|193576168|gb|FK532677.1|FK532677
EST:     CACTTGCGTTTGTCGCAAACAGCACATACACCGTGACAAGTTTTACACTG                         GTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC
genomic: CACTTGCGTTTGTCGCAAACAGCACATACACCGTGACAAGTTTTACACTGgtaagagttg ... atttgattagGTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC
EST: gi|207695386|gb|GD678127.1|GD678127
EST:     CTCTTGCGTTTGTCGCAAACAGCACATACACCGTGACAAGTTTTACACTG                         GTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC
genomic: CACTTGCGTTTGTCGCAAACAGCACATACACCGTGACAAGTTTTACACTGgtaagagttg ... atttgattagGTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC
EST: gi|22933437|gb|BU550576.1|BU550576
EST:     GTTTTACACTG                         GTGCTAGAGTTNNAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC
genomic: GTTTTACACTGgtaagagttg ... atttgattagGTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttgagtttttggtctgttattgaaaggcttggttggagtttccatttgattagGTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGACGGCTGTTCTTCATGCAAGGGGAAATCGAACTTGGTATGCCTCAACAAAC
                                        tttccattt  CT-rich tract
                  ttattgaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagagttgtgaatcatggacctgatgagttgagtttttggtctgttattgaaaggcttggttggagtttccatttgattagGTGCTAGAGTTTCAGAGGGGTAGGCTGCATAACTTGTACTGGAAGAGAGACGGCTGTTCTTCATGCAAGGGGAAATCGAACTTGGTATGCCTCAACAAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT