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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattttactaggctgtgattctttttcttgagacttgagtcccgagttgatcaaattttattttgaacagGTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTATGCTAGAGCTTACACAAATATGATATCGGGTGAGGTTAGGGAGAGGCTA

Basic information

species Glycine max
transcript GLYMA20G02950.2
intron # 14
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|31472042|gb|CD414070.1|CD414070
EST:     ATACCAGCAAACCATGACGAGTTGTGAACAACCGGGACAGATTTTAACTG                         GTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA
genomic: ATACCAGCAAACCATGACGAGTTGTGAACAACCGGGACAGATTTTAACTGgtaattttac ... ttttgaacagGTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA
EST: gi|214004191|gb|DB989308.1|DB989308
EST:     ATACCAGCAAACCATGACGAGTTGTGAACAACCGGGACAGATTTTAAC--                         -T-GTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA
genomic: ATACCAGCAAACCATGACGAGTTGTGAACAACCGGGACAGATTTTAACTGgtaattttac ... ttttgaacagGTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA
EST: gi|51344791|gb|CO985524.1|CO985524
EST:     ATACCAGCAAACCATGACGAGTTGTGAACAACCGGGACAGATTTTAACTG                         GTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA
genomic: ATACCAGCAAACCATGACGAGTTGTGAACAACCGGGACAGATTTTAACTGgtaattttac ... ttttgaacagGTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA
EST: gi|193415814|gb|FK377568.1|FK377568
EST:     CCGGGACAGATTTTAACTG                         GTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA
genomic: CCGGGACAGATTTTAACTGgtaattttac ... ttttgaacagGTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA
EST: gi|21601739|gb|BQ612070.1|BQ612070
EST:     ATACCAGCAAACCATGACGAGTTGTGAACAACCGGGACAGATTTTAACTG                         GTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA
genomic: ATACCAGCAAACCATGACGAGTTGTGAACAACCGGGACAGATTTTAACTGgtaattttac ... ttttgaacagGTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA
EST: gi|193441407|gb|FK410060.1|FK410060
EST:     ACCGGGACAGATTTTAACTG                         GTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA
genomic: ACCGGGACAGATTTTAACTGgtaattttac ... ttttgaacagGTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA
EST: gi|213602617|gb|DB978088.1|DB978088
EST:     ATACCAGCAAACCATGACGAGTTGTGAACAACCGGGACAGATTTTAACTG                         GTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA
genomic: ATACCAGCAAACCATGACGAGTTGTGAACAACCGGGACAGATTTTAACTGgtaattttac ... ttttgaacagGTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgattctttttcttgagacttgagtcccgagttgatcaaattttattttgaacagGTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTATGCTAGAGCTTACACAAATATGATATCGGGTGAGGTTAGGGAGAGGCTA
                             agttgat  putative branch site (score: 5)
                                        ttttatttt  putative PPT
                               ttgatcaaattttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattttactaggctgtgattctttttcttgagacttgagtcccgagttgatcaaattttattttgaacagGTAGTATGATGATCATAGAGCAAATGAAGAAGTGGTGCCCTAAGTTTTGTATGCTAGAGCTTACACAAATATGATATCGGGTGAGGTTAGGGAGAGGCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG