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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttagaactaatctaaggcagtgtaccttaatagacctggctgaacaaacatatgaatttttgctagtttttggtgtatgagagatctaactttgtccagGAAGTTTGGAAACAACGAGTTCGTAATTACTGGAGCAAGCTAGCCAGTAAGATTAAGCCAGACACAATTCGGAACGTGATGGATATGAAGGCAAACTTGG

Basic information

species Glycine max
transcript GLYMA19G34890.2
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|58019201|gb|CX705943.1|CX705943
EST:     GGCAGAAATTCACTATTCTACTGAAATGTTTGAGAAGGACATG                         GAAG-TTGGAAACAACGAGTTCGTAATTACTGGAGCAAGCTAGCCAGTAAG
genomic: GGCAGAAATTCACTATTCTACTGAAATGTTTGAGAAGGACATGgtaatttaaa ... ctttgtccagGAAGTTTGGAAACAACGAGTTCGTAATTACTGGAGCAAGCTAGCCAGTAAG
EST: gi|193433021|gb|FK395715.1|FK395715
EST:     TACTGAAATGTTTTGTAGAAGGACATG                         GAAGTTTGGAAACAACGAGTTCGTAATTACTGGAGCAAGCTAGCCAGTAAG
genomic: TACTGAAATG-TTTG-AGAAGGACATGgtaatttaaa ... ctttgtccagGAAGTTTGGAAACAACGAGTTCGTAATTACTGGAGCAAGCTAGCCAGTAAG
EST: gi|9820214|gb|BE555724.1|BE555724
EST:     CTCGTCTGGCAGAAATTCACTATTCTACTGAAATGTTTGAGAAGGACATG                         GAAGTTTGGAAACAACGAGTTCGTAATTACTGGAGCAAGCTAGCCAGTAAG
genomic: CTCGTCTGGCAGAAATTCACTATTCTACTGAAATGTTTGAGAAGGACATGgtaatttaaa ... ctttgtccagGAAGTTTGGAAACAACGAGTTCGTAATTACTGGAGCAAGCTAGCCAGTAAG
EST: gi|58022379|gb|CX709120.1|CX709120
EST:     TGGCAGAAATTCACTA-TCTACTGAAATG-TTGAGAAGGACATG                         G-AGTTTGGAAACAACGAGTTCGTAATTACTGGAGCAAGCTAGCCAGTAAG
genomic: TGGCAGAAATTCACTATTCTACTGAAATGTTTGAGAAGGACATGgtaatttaaa ... ctttgtccagGAAGTTTGGAAACAACGAGTTCGTAATTACTGGAGCAAGCTAGCCAGTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaacatatgaatttttgctagtttttggtgtatgagagatctaactttgtccagGAAGTTTGGAAACAACGAGTTCGTAATTACTGGAGCAAGCTAGCCAGTAAGATTAAGCCAGACACAATTCGGAACGTGATGGATATGAAGGCAAACTTGG
                                       atctaac  putative branch site (score: 2)
                                             ctttgtcc  CT-rich tract
     atatgaattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttagaactaatctaaggcagtgtaccttaatagacctggctgaacaaacatatgaatttttgctagtttttggtgtatgagagatctaactttgtccagGAAGTTTGGAAACAACGAGTTCGTAATTACTGGAGCAAGCTAGCCAGTAAGATTAAGCCAGACACAATTCGGAACGTGATGGATATGAAGGCAAACTTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA