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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtaatgttttttcctttacttctaaactacctccttccataacattctgtcattgcttttatatgattagagcttgcaactcatcttaatgcaaaatgcaagtttggtgtaaatgcctaaatggatatgttttacttcccccatgccctttgatattcctcctttgataggaagaatgttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG

Basic information

species Glycine max
transcript GLYMA18G39930.2
intron # 4
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|208333137|gb|GE127414.1|GE127414
EST:     GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|151397652|gb|EV267525.1|EV267525
EST:     GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|208106222|gb|GD905149.1|GD905149
EST:     GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|58019388|gb|CX706130.1|CX706130
EST:     GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|208098334|gb|GD894755.1|GD894755
EST:     CTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: CTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|7028397|gb|AW458180.1|AW458180
EST:     GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|193443566|gb|FK409256.1|FK409256
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|213620500|gb|DB957344.1|DB957344
EST:     GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|208279633|gb|GE081260.1|GE081260
EST:     CAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: CAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|208252188|gb|GE046592.1|GE046592
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|58022869|gb|CX709610.1|CX709610
EST:     GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|193581596|gb|FK538299.1|FK538299
EST:     GAACGGACCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATATTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|58016336|gb|CX703078.1|CX703078
EST:     GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|208110158|gb|GD907246.1|GD907246
EST:     GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|17023106|gb|BM094140.1|BM094140
EST:     GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATAT
EST: gi|8825861|gb|BE209591.1|BE209591
EST:     GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|58019799|gb|CX706541.1|CX706541
EST:     GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: GAACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGAATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
EST: gi|192327079|gb|FK015471.1|FK015471
EST:     AACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGGGAATATACTG                         GTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT
genomic: AACAGATCTTAACCATCCTTTGAACAGCTTGGGTAATGGG-AATATACTGgttagtaatg ... ttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttcccccatgccctttgatattcctcctttgataggaagaatgttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG
                                           tgttgat  putative branch site (score: 4)
               tttgatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtaatgttttttcctttacttctaaactacctccttccataacattctgtcattgcttttatatgattagagcttgcaactcatcttaatgcaaaatgcaagtttggtgtaaatgcctaaatggatatgttttacttcccccatgccctttgatattcctcctttgataggaagaatgttgattgcagGTTTGGAAAAGGAAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT