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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctttcctcggttaaaattctctatccaaacatactcttatgtattgtatggcttaatgaaaaattatgcttctcgtgctttcttgaatttcatttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACATCTGTACCGTCTGGTAATGGTTCCCATTTCAGCAATAGAAATGATGGGAT

Basic information

species Glycine max
transcript GLYMA11G02340.1
intron # 1
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|193469352|gb|FK435516.1|FK435516
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCT
EST: gi|208314752|gb|GE112212.1|GE112212
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGACAACCTTAATCATCAAAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAG-CA-CCTTA-TCATCAAAT
EST: gi|208294967|gb|GE091188.1|GE091188
EST:     TTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|208301080|gb|GE097345.1|GE097345
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTAATACATCAAAATGGGTACCAAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTA-T-CATCAAA-TGGGT-CCA-T
EST: gi|208321516|gb|GE125561.1|GE125561
EST:     TCGCGATTACGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TCACGATT-CGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|193431543|gb|FK397373.1|FK397373
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|208213882|gb|GE010127.1|GE010127
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAAT
EST: gi|24135950|gb|BU926460.1|BU926460
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|193720462|gb|FK659386.1|FK659386
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCA
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCA
EST: gi|193535044|gb|FK493100.1|FK493100
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|208321588|gb|GE120845.1|GE120845
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|207738300|gb|GD716092.1|GD716092
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|9439962|gb|BE440474.1|BE440474
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|192329164|gb|FK021459.1|FK021459
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|298198113|gb|HO039652.1|HO039652
EST:     TTCACGATTTGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGCCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|193606444|gb|FK559549.1|FK559549
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|207825729|gb|GD800996.1|GD800996
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|207734622|gb|GD709689.1|GD709689
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|208051298|gb|GD847137.1|GD847137
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|207757205|gb|GD727587.1|GD727587
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|208312857|gb|GE111689.1|GE111689
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|207691538|gb|GD675241.1|GD675241
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCNTAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|208105229|gb|GD905458.1|GD905458
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAG
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAG
EST: gi|208156517|gb|GD956827.1|GD956827
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|208028133|gb|GD822247.1|GD822247
EST:     ACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: ACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|208336275|gb|GE138672.1|GE138672
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTTATCATCAAAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTT-ATCATCAAAT
EST: gi|193625322|gb|FK577422.1|FK577422
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACAT
EST: gi|193386372|gb|FK350376.1|FK350376
EST:     TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAG                         AGGAATCAAGTGGCCTTACTAGCACCTTATCAATCAAAATGGGTCCATAAC
genomic: TTCACGATTCGCCAACTTGATTCAACAATGTGATCGCTTCATTGAAGCAGgttaggtcac ... catttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCA-TCAAA-TGGGTCCATAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatggcttaatgaaaaattatgcttctcgtgctttcttgaatttcatttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACATCTGTACCGTCTGGTAATGGTTCCCATTTCAGCAATAGAAATGATGGGAT
     gcttaat  putative branch site (score: 4)
                                          tttcattt  putative PPT
       ttaatgaaaaattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctttcctcggttaaaattctctatccaaacatactcttatgtattgtatggcttaatgaaaaattatgcttctcgtgctttcttgaatttcatttaccagAGGAATCAAGTGGCCTTACTAGCACCTTATCATCAAATGGGTCCATAACATCTGTACCGTCTGGTAATGGTTCCCATTTCAGCAATAGAAATGATGGGAT

- - - - - - - - - - - - ccaaaca
- - - - - - - - - - - - - - - - - - - - - - tgtatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaat