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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacatgaaactttgaaagatatgttgatgatggaattctagcagatcttatggaaatattattattatttttttaattctgagttttattgaattggcagATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATGAGAACACAAACGGAAAGGGGCCTCAATGATAAAGTGGCGATTTCTAAAT

Basic information

species Glycine max
transcript GLYMA15G06170.1
intron # 6
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|193377458|gb|FK340156.1|FK340156
EST:     AAGTAAGTTGTATGACCTTAACAG                         ATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG
genomic: AAGTAAGTTGTATGACCTTAACAGgtaaactctg ... gaattggcagATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG
EST: gi|193653367|gb|FK594759.1|FK594759
EST:     AAGTAAGTTGTATGACCTTAACAG                         ATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG
genomic: AAGTAAGTTGTATGACCTTAACAGgtaaactctg ... gaattggcagATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG
EST: gi|208281369|gb|GE073727.1|GE073727
EST:     GCCGGGAAGTAAGTTGTATGACCTTAACAG                         ATAAAGAAGCACTATTTTCAGGGAATTTTATTGTTCACCTCTTTG
genomic: GCCGGGAAGTAAGTTGTATGACCTTAACAGgtaaactctg ... gaattggcagATAAAGAAGCACTATTTTCAGGGAATTTTAT-GTTCACCTCTTTG
EST: gi|193443668|gb|FK405634.1|FK405634
EST:     GATATGCTCGCCGGGAAGTAAGTTGTATGACCTTAACAG                         ATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG
genomic: GATATGCTCGCCGGGAAGTAAGTTGTATGACCTTAACAGgtaaactctg ... gaattggcagATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG
EST: gi|208277202|gb|GE077877.1|GE077877
EST:     AAGTAAGTTGTATGACCTTAACAG                         ATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG
genomic: AAGTAAGTTGTATGACCTTAACAGgtaaactctg ... gaattggcagATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG
EST: gi|208243260|gb|GE038408.1|GE038408
EST:     CGCCGGGAAGTAAGTTGTATGACCTTAACAG                         ATAAAGAAGCACTATTTTCAGGGAATTTT
genomic: CGCCGGGAAGTAAGTTGTATGACCTTAACAGgtaaactctg ... gaattggcagATAAAGAAGCACTATTTTCAGGGAATTTT
EST: gi|207747424|gb|GD721291.1|GD721291
EST:     GATATGCTCGCCGGGAAGTAAGTTGTATGACCTTAACAG                         ATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG
genomic: GATATGCTCGCCGGGAAGTAAGTTGTATGACCTTAACAGgtaaactctg ... gaattggcagATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG
EST: gi|207704339|gb|GD685069.1|GD685069
EST:     AAGTAAGTTGTATGACCTTAACAG                         ATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG
genomic: AAGTAAGTTGTATGACCTTAACAGgtaaactctg ... gaattggcagATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG
EST: gi|208175717|gb|GD973794.1|GD973794
EST:     TATGCTCGCCGGGAAGTAAGTTGTATGACCTTAACAG                         ATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG
genomic: TATGCTCGCCGGGAAGTAAGTTGTATGACCTTAACAGgtaaactctg ... gaattggcagATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttatggaaatattattattatttttttaattctgagttttattgaattggcagATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATGAGAACACAAACGGAAAGGGGCCTCAATGATAAAGTGGCGATTTCTAAAT
                         ttttaat  putative branch site (score: 3)
        aaatattattattatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tacatgaaactttgaaagatatgttgatgatggaattctagcagatcttatggaaatattattattatttttttaattctgagttttattgaattggcagATAAAGAAGCACTATTTTCAGGGAATTTTATGTTCACCTCTTTGAAGCATGAGAACACAAACGGAAAGGGGCCTCAATGATAAAGTGGCGATTTCTAAAT

- catgaaa
- - - - - - - - - - - gttgatg
- - - - - - - - - - - - - - - - - - - - - - - cttatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgagtt