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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagagtgctgatttatttgtttatatatttttataaacataactgtaatatttcaattgtgaatgtttttcacactcttattccaacagGCAATAGATGAACTTATTTCCTTAAAGCAGAATACTGGTCAAGAAGATCCAGAACTAGAAGAGGGTGAGTGGCAGATGATGTGGAATTCACAG

Basic information

species Glycine max
transcript GLYMA20G38820.2
intron # 5
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|151400450|gb|EV270264.1|EV270264
EST:     CTAGGCAAAGGTTATTGACAGCTATTTCCTCGGGGAAGGGCATTAAAGAG                         GCAATAGATGAACTTATTTCCTTAAAGCAGA-TACTGGTCAAGA-GATCC
genomic: CTAGGCAAAGGTTATTGACAGCTATTTCCTCGGGGAAGGGCATTAAAGAGgtcagagtgc ... attccaacagGCAATAGATGAACTTATTTCCTTAAAGCAGAATACTGGTCAAGAAGATCC
EST: gi|10254492|gb|BE822258.1|BE822258
EST:     NNAGGCAAAGGTTATTGACAGCTATTTNNTCGGGGAAGGGCATTAAAGAG                         GCAATAGATGAACTTATTTCCTTAAAGCAGAATACTGGTCAAGAAGATCCA
genomic: CTAGGCAAAGGTTATTGACAGCTATTTCCTCGGGGAAGGGCATTAAAGAGgtcagagtgc ... attccaacagGCAATAGATGAACTTATTTCCTTAAAGCAGAATACTGGTCAAGAAGATCCA
EST: gi|192307404|gb|FK001978.1|FK001978
EST:     CTAGGCAAAGGTTATTGACAGCTATTTCCTCGGGGAAGGGCATTAAGGAG                         GCAATAGATGAACTTATTTCCTTAAAGCAGAATACTGGTCAAGAAGATCCA
genomic: CTAGGCAAAGGTTATTGACAGCTATTTCCTCGGGGAAGGGCATTAAAGAGgtcagagtgc ... attccaacagGCAATAGATGAACTTATTTCCTTAAAGCAGAATACTGGTCAAGAAGATCCA
EST: gi|192321155|gb|FK012467.1|FK012467
EST:     CTAGGCAAAGGTTATTGACAGCTATTTCCTCGGGGAAGGGCATTAAAGAG                         GCAATAGATGAACTTATTTCCTTAAAGCAGAATACTGGTCAAGAAGATCCA
genomic: CTAGGCAAAGGTTATTGACAGCTATTTCCTCGGGGAAGGGCATTAAAGAGgtcagagtgc ... attccaacagGCAATAGATGAACTTATTTCCTTAAAGCAGAATACTGGTCAAGAAGATCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacataactgtaatatttcaattgtgaatgtttttcacactcttattccaacagGCAATAGATGAACTTATTTCCTTAAAGCAGAATACTGGTCAAGAAGATCCAGAACTAGAAGAGGGTGAGTGGCAGATGATGTGGAATTCACAG
  acataac  putative branch site (score: 3)
                                        ctcttattcc  putative PPT
         tgtaatatttcaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagagtgctgatttatttgtttatatatttttataaacataactgtaatatttcaattgtgaatgtttttcacactcttattccaacagGCAATAGATGAACTTATTTCCTTAAAGCAGAATACTGGTCAAGAAGATCCAGAACTAGAAGAGGGTGAGTGGCAGATGATGTGGAATTCACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG