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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctggattgcattttatgttcttgttttattagtgcataaatagatgacaacttcttggtaaaaataccactgtttacttacatctgtcatctgtgttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG

Basic information

species Glycine max
transcript GLYMA11G04420.1
intron # 2
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|151408863|gb|EV278671.1|EV278671
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
EST: gi|12773182|gb|BG238109.1|BG238109
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
EST: gi|298183465|gb|HO028678.1|HO028678
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
EST: gi|31306393|gb|CD391596.1|CD391596
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
EST: gi|192298731|gb|FG990997.1|FG990997
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
EST: gi|192312780|gb|FK003992.1|FK003992
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
EST: gi|298197449|gb|HO044928.1|HO044928
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
EST: gi|192295310|gb|FG985964.1|FG985964
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
EST: gi|192312779|gb|FK003991.1|FK003991
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
EST: gi|192332695|gb|FK025352.1|FK025352
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
EST: gi|254318802|gb|GR830366.1|GR830366
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
EST: gi|298196857|gb|HO041600.1|HO041600
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
EST: gi|298180781|gb|HO022220.1|HO022220
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAGTCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
EST: gi|10848287|gb|BF071708.1|BF071708
EST:     TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTG                         GCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
genomic: TTGCCTCCTTGGCAATTTTGGTGTCTGGAGGAATCGTCTTGCAAATTTTGgtctggattg ... gttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttcttggtaaaaataccactgtttacttacatctgtcatctgtgttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG
                         tacttac  putative branch site (score: 1)
         taaaaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctggattgcattttatgttcttgttttattagtgcataaatagatgacaacttcttggtaaaaataccactgtttacttacatctgtcatctgtgttgtgtcagGCATGTGCCTTGTATAATAACTGGTGGCCGATGCTGAGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG