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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtacctcactataaatatactttctttcttctcatttccggtgacattatgctctgaactttttatgatgttctgttctgcattattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAAATTGAGTGCTAAGCTTATTTTTGGGGCTGACAG

Basic information

species Glycine max
transcript GLYMA06G08670.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G08670.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g55540.2 (Oryza sativa), 3'ss of exon 3
gttagtacctcactataaatatactttc--tttcttctcatttccgg--tgacattatgctctgaactttttatgatgttctgttctgcattattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAAATTGAGTGCTAAGCTTATTTTTGGGGCTGACAG
| | |     ||  |  || | ||  |    |  || | |   |     |   || ||  ||  |  | | | | |  |    || |    | |    ||||||||    ||||| ||| | ||||||  ||| || || ||||| |||||  |||||||||||||||||||||| ||||||||
gatgggtttacaggaagaaaaaaccattgactattttttacagcaaacttatgatgatattcccagttgtattttacctgtgattatttgctttgactagGTCACGTGTTAAGGAGTATTTGCCGATCACTGGACTGGCCGATTTCAATAAGCTGAGTGCTAAGCTTATTTTTGGTGCTGACAG
















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|213618075|gb|DB963708.1|DB963708
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|5606173|gb|AI900271.1|AI900271
EST:     CATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|27808994|gb|CB063416.1|CB063416
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|17022063|gb|BM093097.1|BM093097
EST:     GCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: GCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|37997401|gb|CF808990.1|CF808990
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|151408997|gb|EV278805.1|EV278805
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|213587077|gb|DB961772.1|DB961772
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|151394218|gb|EV264089.1|EV264089
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|6454608|gb|AW185291.1|AW185291
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|9986765|gb|BE660873.1|BE660873
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|151395018|gb|EV264889.1|EV264889
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|298184704|gb|HO029917.1|HO029917
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|213588877|gb|DB967957.1|DB967957
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|16996361|gb|BM085733.1|BM085733
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|192307206|gb|FK001220.1|FK001220
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|24135997|gb|BU926507.1|BU926507
EST:     GAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: GAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|298196933|gb|HO041676.1|HO041676
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCGACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|209723439|gb|BW682393.1|BW682393
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|24205360|gb|BU964613.1|BU964613
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|298196196|gb|HO044587.1|HO044587
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|7925748|gb|AW831774.1|AW831774
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTNTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|209696907|gb|BW660472.1|BW660472
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|298174108|gb|HO017444.1|HO017444
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|209719273|gb|BW679815.1|BW679815
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|151411675|gb|EV281486.1|EV281486
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAAGAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|209714938|gb|BW650784.1|BW650784
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
EST: gi|18690845|gb|BM519693.1|BM519693
EST:     CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGT                         GTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA
genomic: CTTGTTTTGAATGTAGTGAGGCGAGTTGAACAGCAACTCATAAATGACGTgttagtacct ... ttattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccggtgacattatgctctgaactttttatgatgttctgttctgcattattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAAATTGAGTGCTAAGCTTATTTTTGGGGCTGACAG
                                             ttattttc  CT-rich tract
                   aactttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtacctcactataaatatactttctttcttctcatttccggtgacattatgctctgaactttttatgatgttctgttctgcattattttcagGTCACGCAACAAGGAATATATTCCGATCGTTGGGCTTGCTGATTTTAATAAATTGAGTGCTAAGCTTATTTTTGGGGCTGACAG

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