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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcaaataaatgaattttacaatgttatatgttttaatttctatttttttactataattcctattttattttcttatttttcttttgtttttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTATCTAGCCCATGAATGAAAAGGTGAAAAAAGAGAAGATTAGGCCGTACTC

Basic information

species Glycine max
transcript GLYMA04G04400.1
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|208326964|gb|GE123712.1|GE123712
EST:     AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAG                         GAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
genomic: AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAGgtaggaacaa ... ttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
EST: gi|193374402|gb|FK339382.1|FK339382
EST:     AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAG                         GAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
genomic: AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAGgtaggaacaa ... ttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
EST: gi|208122794|gb|GD921848.1|GD921848
EST:     AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAG                         GAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
genomic: AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAGgtaggaacaa ... ttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
EST: gi|208046476|gb|GD849088.1|GD849088
EST:     AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAG                         GAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
genomic: AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAGgtaggaacaa ... ttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
EST: gi|58024799|gb|CX711540.1|CX711540
EST:     AAATCCCTCAAACCCAGATAACTCCAGCAAAACCCACCGGGAATTTACAG                         GAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
genomic: AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAGgtaggaacaa ... ttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
EST: gi|208090323|gb|GD885344.1|GD885344
EST:     AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAG                         GAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
genomic: AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAGgtaggaacaa ... ttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
EST: gi|22929770|gb|BU546909.1|BU546909
EST:     AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAG                         GAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
genomic: AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAGgtaggaacaa ... ttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
EST: gi|207735831|gb|GD709764.1|GD709764
EST:     AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAG                         GAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
genomic: AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAGgtaggaacaa ... ttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
EST: gi|58024179|gb|CX710920.1|CX710920
EST:     AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAG                         GAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
genomic: AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAGgtaggaacaa ... ttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
EST: gi|58016625|gb|CX703367.1|CX703367
EST:     AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAG                         GAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
genomic: AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAGgtaggaacaa ... ttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
EST: gi|208119429|gb|GD914254.1|GD914254
EST:     AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAG                         GAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
genomic: AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAGgtaggaacaa ... ttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
EST: gi|22931543|gb|BU548682.1|BU548682
EST:     AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAG                         GAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
genomic: AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAGgtaggaacaa ... ttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
EST: gi|58014188|gb|CX700930.1|CX700930
EST:     AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAG                         GAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA
genomic: AAATCCCTCAAACCCAGATAACTCCAGCTAAACCCACCGGGAATTTACAGgtaggaacaa ... ttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttactataattcctattttattttcttatttttcttttgtttttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTATCTAGCCCATGAATGAAAAGGTGAAAAAAGAGAAGATTAGGCCGTACTC
            ttcctattttattttc  CT-rich tract
       tataattcctatttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcaaataaatgaattttacaatgttatatgttttaatttctatttttttactataattcctattttattttcttatttttcttttgtttttatttgcagGAAATAACAGGAAGACTAAAAGAGTTCTAGACTTCTGTTTAGTGGAAGTTATCTAGCCCATGAATGAAAAGGTGAAAAAAGAGAAGATTAGGCCGTACTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- -aaataaa
- - - - - - - - - -caatgtt