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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgcaatgcattcctagttttttgatcctttgtacattttccaaactatacattcttcttacattagttaggaatgctaagaatcctttactttataaagGAATTTGCGTGTGGAAAGCAAAACCCGGTTCTATTGGAAGTAGCTCCACAGTAATGGATATCCAGCCAACAAAACCTGAACCTGATTCTCACACCCCTGA

Basic information

species Glycine max
transcript GLYMA02G08170.1
intron # 7
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|5509077|gb|AI855635.1|AI855635
EST:     TTCAACACACCAACCTGCTATGGCTCCAAGGCCCGATTTGCCTCTTAAAG                         GAATTTGCGTGTGGAAAGCAAAACCCGGTTCTATTGGAAGTAGCTCCACAG
genomic: TTCAACACACCAACCTGCTATGGCTCCAAGGCCCGATTTGCCTCTTAAAGgtaagtcctt ... ctttataaagGAATTTGCGTGTGGAAAGCAAAACCCGGTTCTATTGGAAGTAGCTCCACAG
EST: gi|298176465|gb|HO026700.1|HO026700
EST:     TTCAACACACCAACCTGCTATGGCTCTAAGGCCCGATTTGCCTCTTAAAG                         GAATTTGCGTGTGGAAAGCAAAACCCGGTTCTATTGGAAGTAGCTCCACAG
genomic: TTCAACACACCAACCTGCTATGGCTCCAAGGCCCGATTTGCCTCTTAAAGgtaagtcctt ... ctttataaagGAATTTGCGTGTGGAAAGCAAAACCCGGTTCTATTGGAAGTAGCTCCACAG
EST: gi|208220278|gb|GE017624.1|GE017624
EST:     TTCAACACACCAACCTGCTATGGCTCCAAGGCCCGATTTGCCTCTTAAAG                         GAATTTGCGTGTGGAAAGCAAAACCCGGTTCTATTGGAAGTAGCTCCACAG
genomic: TTCAACACACCAACCTGCTATGGCTCCAAGGCCCGATTTGCCTCTTAAAGgtaagtcctt ... ctttataaagGAATTTGCGTGTGGAAAGCAAAACCCGGTTCTATTGGAAGTAGCTCCACAG
EST: gi|22933458|gb|BU550597.1|BU550597
EST:     TTCAACACACCAACCTGCTATGGCTCCAAGGCCCGATTTGCCTCTTAAAG                         GAATTTGCGTGTGGAAAGCAAAACCCGGTTCTATTGGAAGTAGCTCCACAG
genomic: TTCAACACACCAACCTGCTATGGCTCCAAGGCCCGATTTGCCTCTTAAAGgtaagtcctt ... ctttataaagGAATTTGCGTGTGGAAAGCAAAACCCGGTTCTATTGGAAGTAGCTCCACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatacattcttcttacattagttaggaatgctaagaatcctttactttataaagGAATTTGCGTGTGGAAAGCAAAACCCGGTTCTATTGGAAGTAGCTCCACAGTAATGGATATCCAGCCAACAAAACCTGAACCTGATTCTCACACCCCTGA
          ttcttac  putative branch site (score: 2)
                                      tcctttacttt  putative PPT
                                         tttactttataaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgcaatgcattcctagttttttgatcctttgtacattttccaaactatacattcttcttacattagttaggaatgctaagaatcctttactttataaagGAATTTGCGTGTGGAAAGCAAAACCCGGTTCTATTGGAAGTAGCTCCACAGTAATGGATATCCAGCCAACAAAACCTGAACCTGATTCTCACACCCCTGA

ctgcaat
- - - -gcattcc
- - - - - - - - - - - - -tcctttg
- - - - - - - - - - - - - - - - - - - - ccaaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgct