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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgtagtgtttaccttttcttcaaggtcaaacatgttccttaaattacaatttcccataaccgccctttcatactgtttttcggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATATGACGTCACAGACTTGAAAAATGGAAGATGATCTTCCTTCCGCTTGTCT

Basic information

species Glycine max
transcript GLYMA17G14450.1
intron # 20
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|209703155|gb|BW673314.1|BW673314
EST:     AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACG                         AAATTGAAGATGCTGACAGCACAGCAACTTTCATTGGATGATCTCCAGATA
genomic: AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
EST: gi|213606905|gb|DB974354.1|DB974354
EST:     AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACG                         AAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
genomic: AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
EST: gi|193356694|gb|FK320047.1|FK320047
EST:     ACAATATATTACG                         AAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
genomic: ACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
EST: gi|208272702|gb|GE067986.1|GE067986
EST:     AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACG                         AAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
genomic: AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
EST: gi|58014859|gb|CX701601.1|CX701601
EST:     AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACG                         AAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
genomic: AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
EST: gi|254340092|gb|GR858217.1|GR858217
EST:     AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACG                         AAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
genomic: AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
EST: gi|208143354|gb|GD943268.1|GD943268
EST:     AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACG                         AAATTGAAGATG
genomic: AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATG
EST: gi|254321303|gb|GR824620.1|GR824620
EST:     AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACG                         AAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
genomic: AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
EST: gi|193471938|gb|FK437795.1|FK437795
EST:     AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACG                         AAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
genomic: AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
EST: gi|6666591|gb|AW278050.1|AW278050
EST:     AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACG                         AAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
genomic: AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
EST: gi|208193157|gb|GD991202.1|GD991202
EST:     AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACG                         AAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
genomic: AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
EST: gi|213613420|gb|DB974617.1|DB974617
EST:     AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACG                         AAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
genomic: AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
EST: gi|209720988|gb|BW682467.1|BW682467
EST:     AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACG                         AAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
genomic: AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATA
EST: gi|208292619|gb|GE093741.1|GE093741
EST:     AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACG                         AAATTGAAGATGCTGACAGCACAAGGAACTTTCATTG
genomic: AAGTTATTCTAGGCTCGTCAAGTATCGATGATCCTGCACAATATATTACGgtattgtagt ... cggcttgtagAAATTGAAGATGCTGACAGCACA-GGAACTTTCATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccttaaattacaatttcccataaccgccctttcatactgtttttcggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATATGACGTCACAGACTTGAAAAATGGAAGATGATCTTCCTTCCGCTTGTCT
                  ccataac  putative branch site (score: 3)
                                     ctgtttttc  putative PPT
     aaattacaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattgtagtgtttaccttttcttcaaggtcaaacatgttccttaaattacaatttcccataaccgccctttcatactgtttttcggcttgtagAAATTGAAGATGCTGACAGCACAGGAACTTTCATTGGATGATCTCCAGATATGACGTCACAGACTTGAAAAATGGAAGATGATCTTCCTTCCGCTTGTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG