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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggttggttgactcatatgttttccctgtgcagttgatacttaaacatgtatgcagtgttttcttgtgagttttgatatctgacaatcttctgttttgcagATGGACAACAGTCCAACCACTGGCAGTGTAAACACCACCACTGCTGAGAAGCAGCGTCTAGCAAAATCTTCCCTTTCTTTCAACTGTAAGAA

Basic information

species Glycine max
transcript GLYMA07G05170.1
intron # 8
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|8669207|gb|BE190314.1|BE190314
EST:     CATATTAACAGGGCTTCTTTCATTCATG                         ATGGACAACAGTCCAACCACTGGCAGTGTAAACACCACCACTGCTGAGAAG
genomic: CATATTAACAGGGCTTCTTTCATTCATGgtatgttgta ... tgttttgcagATGGACAACAGTCCAACCACTGGCAGTGTAAACACCACCACTGCTGAGAAG
EST: gi|193367615|gb|FK332077.1|FK332077
EST:     CATATTAACAGGGCTTCTTTCATTCATG                         ATGGACAACAGTCCAACCACTGGCAGT
genomic: CATATTAACAGGGCTTCTTTCATTCATGgtatgttgta ... tgttttgcagATGGACAACAGTCCAACCACTGGCAGT
EST: gi|193362954|gb|FK327934.1|FK327934
EST:     CATAATTAACAGG-CTTCTTTCATTCATG                         ATGGACAACAGTCCAACCACTGGCAGT
genomic: CATA-TTAACAGGGCTTCTTTCATTCATGgtatgttgta ... tgttttgcagATGGACAACAGTCCAACCACTGGCAGT
EST: gi|120495095|gb|EH223262.1|EH223262
EST:     CATATTAACAGGGCTTCTTTCATTCATG                         ATGGACAACAGTCCAACCACTGGCAGTTGTAAACACCACCACTGCTGAGAA
genomic: CATATTAACAGGGCTTCTTTCATTCATGgtatgttgta ... tgttttgcagATGGACAACAGTCCAACCACTGGCAGT-GTAAACACCACCACTGCTGAGAA
EST: gi|208045851|gb|GD847707.1|GD847707
EST:     CATATTAACAGGGCTTCTTTCATTCATG                         ATGGACAACAGTCCAACCACTGGCAG
genomic: CATATTAACAGGGCTTCTTTCATTCATGgtatgttgta ... tgttttgcagATGGACAACAGTCCAACCACTGGCAG
EST: gi|208275347|gb|GE075615.1|GE075615
EST:     CATATTAACAGGGCTTCTTTCATTCATG                         ATGGACAACAGTCCAACCACTGGCAGTGTAAACACCACCACTGCTGAGAAG
genomic: CATATTAACAGGGCTTCTTTCATTCATGgtatgttgta ... tgttttgcagATGGACAACAGTCCAACCACTGGCAGTGTAAACACCACCACTGCTGAGAAG
EST: gi|9902562|gb|BE611593.1|BE611593
EST:     CATATTAACAGGGCTTCTTTCATTCATG                         ATGGACAACAGT
genomic: CATATTAACAGGGCTTCTTTCATTCATGgtatgttgta ... tgttttgcagATGGACAACAGT
EST: gi|7692130|gb|AW760244.1|AW760244
EST:     CATATTAACAGGGCTTCTTTCATTCATG                         ATGGACAACAGTCCAACCACTGGCAGTGTAAACACCACCACTGCTGAGAAG
genomic: CATATTAACAGGGCTTCTTTCATTCATGgtatgttgta ... tgttttgcagATGGACAACAGTCCAACCACTGGCAGTGTAAACACCACCACTGCTGAGAAG
EST: gi|120491908|gb|EH220075.1|EH220075
EST:     CATATTAACAGGGCTTCTTTCATTCATG                         ATGGACAACAGTCCAACCACTGGCAGTGTAAACACCACCACTGCTGAGAAG
genomic: CATATTAACAGGGCTTCTTTCATTCATGgtatgttgta ... tgttttgcagATGGACAACAGTCCAACCACTGGCAGTGTAAACACCACCACTGCTGAGAAG
EST: gi|192331929|gb|FK026713.1|FK026713
EST:     CATATTAACAGGGCTTCTTTCATTCATG                         ATGGACAACAGTCCAACCACTGGCAGTGTAAACACCACCACTGCTGAGAAG
genomic: CATATTAACAGGGCTTCTTTCATTCATGgtatgttgta ... tgttttgcagATGGACAACAGTCCAACCACTGGCAGTGTAAACACCACCACTGCTGAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtatgcagtgttttcttgtgagttttgatatctgacaatcttctgttttgcagATGGACAACAGTCCAACCACTGGCAGTGTAAACACCACCACTGCTGAGAAGCAGCGTCTAGCAAAATCTTCCCTTTCTTTCAACTGTAAGAA
                               atctgac  putative branch site (score: 3)
                                        tcttctgtttt  putative PPT
                        ttttgatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggttggttgactcatatgttttccctgtgcagttgatacttaaacatgtatgcagtgttttcttgtgagttttgatatctgacaatcttctgttttgcagATGGACAACAGTCCAACCACTGGCAGTGTAAACACCACCACTGCTGAGAAGCAGCGTCTAGCAAAATCTTCCCTTTCTTTCAACTGTAAGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC