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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcctcggttaatgccgcaatgagcatgataattttttttttccaaccaatttcaaatgtaacttatggcattggtaattgtattcattcattctttgcagGATGAGTGCTGCTGCTTATCTTGCTAGTTATTTGACTCGTGCAAAGTTCCTTTCAGCTGCATTGGTCACTAACATCATACAAAG

Basic information

species Glycine max
transcript GLYMA16G21590.1
intron # 11
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|9566005|gb|BE475576.1|BE475576
EST:     ATGGTTCTTGCTGATATGTTTGGATGTGATGTTAATCCCCCTATTACTAG                         GATGAGTGCTGCTGCTTATCTTGCTAGTTATTTGACTCGTGCAAAGTTCCT
genomic: ATGGTTCTTGCTGATATGTTTGGATGTGATGTTAATCCCCCTATTACTAGgtaaattttt ... ttctttgcagGATGAGTGCTGCTGCTTATCTTGCTAGTTATTTGACTCGTGCAAAGTTCCT
EST: gi|15199487|gb|BI423855.1|BI423855
EST:     ATGGTTCTTGCTGATATGTTTGGATGTGATGTTAATCCCCCTATTACTAG                         GATGAGTGCTGCTGCTTATCTTGCTAGTTATTTGACTCGTGCAAAGTTCCT
genomic: ATGGTTCTTGCTGATATGTTTGGATGTGATGTTAATCCCCCTATTACTAGgtaaattttt ... ttctttgcagGATGAGTGCTGCTGCTTATCTTGCTAGTTATTTGACTCGTGCAAAGTTCCT
EST: gi|192298474|gb|FG988475.1|FG988475
EST:     TGGTTCTTGCTGATATGTTTTGGATGTGATGTTAATCCCCCTATTACTAG                         GATGAGTGCTGCTGCTTATCTTGCTAGTTATTTTGACTCGTGCAAAGTTCC
genomic: TGGTTCTTGCTGATATG-TTTGGATGTGATGTTAATCCCCCTATTACTAGgtaaattttt ... ttctttgcagGATGAGTGCTGCTGCTTATCTTGCTAGTTA-TTTGACTCGTGCAAAGTTCC
EST: gi|10843968|gb|BF070884.1|BF070884
EST:     GTTAATCCCCCTATTACTAG                         GATGAGTGCTGCTGCTTATCTTGCTAGTTATTTGACTCGTGCAAAGTTCCT
genomic: GTTAATCCCCCTATTACTAGgtaaattttt ... ttctttgcagGATGAGTGCTGCTGCTTATCTTGCTAGTTATTTGACTCGTGCAAAGTTCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaatttcaaatgtaacttatggcattggtaattgtattcattcattctttgcagGATGAGTGCTGCTGCTTATCTTGCTAGTTATTTGACTCGTGCAAAGTTCCTTTCAGCTGCATTGGTCACTAACATCATACAAAG
          atgtaac  putative branch site (score: 3)
                                     ttcattcattcttt  putative PPT
                             taattgtattcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcctcggttaatgccgcaatgagcatgataattttttttttccaaccaatttcaaatgtaacttatggcattggtaattgtattcattcattctttgcagGATGAGTGCTGCTGCTTATCTTGCTAGTTATTTGACTCGTGCAAAGTTCCTTTCAGCTGCATTGGTCACTAACATCATACAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - taatgcc
- - - - - - - - - - - gcatgat
- - - - - - - - - - - - - - - - - - - - -ccaacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttatgg