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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttgatgatcctacttgaacacattgaaatttattttctatttccccatgttctagaatacaagttaatgttttcttccttttacattttggctttagCTTGAAAAAGCACGGAGTGAGTGCAGAATTAAAGATGAATCTATGCGAAAACTTGAAGAAAATTTGCAAAACTTGGAGAGTAAGGCCAAAGGCAAGGATC

Basic information

species Glycine max
transcript GLYMA09G33340.1
intron # 12
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|208087831|gb|GD886941.1|GD886941
EST:     CTGTTAAGAAGCAAATTGATACAAGTGAGGTTCAAAAGATGAAAGCAATG                         CTTGAAAAAGCACGGAGTGAGTGCAGAATTAAAGATGAATCTATGCGAAAA
genomic: CTGTTAAGAAGCAAATTGATACAAGTGAGGTTCAAAAGATGAAAGCAATGgtaggttgat ... ttggctttagCTTGAAAAAGCACGGAGTGAGTGCAGAATTAAAGATGAATCTATGCGAAAA
EST: gi|9440383|gb|BE440889.1|BE440889
EST:     CTGTTAAGAAGCAAATTGATACAAGTGAGGTTCAAAAGATGAAAGCAATG                         CTTGAAAAAGCACGGAGTGAGTGCAGAATTAAAGATGAATCTATGCGAAAA
genomic: CTGTTAAGAAGCAAATTGATACAAGTGAGGTTCAAAAGATGAAAGCAATGgtaggttgat ... ttggctttagCTTGAAAAAGCACGGAGTGAGTGCAGAATTAAAGATGAATCTATGCGAAAA
EST: gi|192309002|gb|FK001778.1|FK001778
EST:     CTGTTAAGAAGCAAATTGATACAAGTGAGGTTCAAAAGGTGAAAGCAATG                         CTTGAAAAAGCACGGAGTGAGTGCAGAATTAAAGATGAATCTATGCGAAAA
genomic: CTGTTAAGAAGCAAATTGATACAAGTGAGGTTCAAAAGATGAAAGCAATGgtaggttgat ... ttggctttagCTTGAAAAAGCACGGAGTGAGTGCAGAATTAAAGATGAATCTATGCGAAAA
EST: gi|193703073|gb|FK636929.1|FK636929
EST:     CTGTTAAGAAGCAAATTGATACAAGTGAGGTTCAAAAGATGAAAGCAATG                         CTTGAAAAAGCACGGAGTGAGTGCAGAATTAAAGATGAATCTATGCGAAAA
genomic: CTGTTAAGAAGCAAATTGATACAAGTGAGGTTCAAAAGATGAAAGCAATGgtaggttgat ... ttggctttagCTTGAAAAAGCACGGAGTGAGTGCAGAATTAAAGATGAATCTATGCGAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccccatgttctagaatacaagttaatgttttcttccttttacattttggctttagCTTGAAAAAGCACGGAGTGAGTGCAGAATTAAAGATGAATCTATGCGAAAACTTGAAGAAAATTTGCAAAACTTGGAGAGTAAGGCCAAAGGCAAGGATC
                   agttaat  putative branch site (score: 4)
                         tgttttcttcctttta  CT-rich tract
                                    ttttacatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggttgatgatcctacttgaacacattgaaatttattttctatttccccatgttctagaatacaagttaatgttttcttccttttacattttggctttagCTTGAAAAAGCACGGAGTGAGTGCAGAATTAAAGATGAATCTATGCGAAAACTTGAAGAAAATTTGCAAAACTTGGAGAGTAAGGCCAAAGGCAAGGATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA