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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGGGAGTCAGGACTTCGGGAACTTGGGCAGCTGGAGCAAGATCTTGTTTTTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAAgtaagtaattctaagatgggaaatgaaaagggtgtaccttacacctagttagtcgacaaaataagaaagttttttattgcagaaaaaggtcatgaaattagaaatagaacttttgctttttcatttgttaaaattcatttatgtaccatgtttatgcag

Basic information

species Glycine max
transcript GLYMA17G14450.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G14450.1 (Glycine max), 5'ss of exon 14
lower sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 14
TAGGGAGTCAGGACTTCGGGAACTTGGGCAGCTGGAGCAAGATCTTGTTTTTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAAgtaagtaattctaagatgggaaatgaa--aagggtgtaccttac-acctagttagtcgacaaaataagaaagtttttta-ttgcagaaaaaggtcatgaaattagaaatagaacttttgctttttcatttgttaaaattcatttatgtaccatgtttatgcag
 || |||  |||||||||||| ||||| || || || ||||| ||||||||||| || || || ||||| |||||||| |||| ||| | |||  | || ||  | |  |     |  |    |||   |  |   ||| | |  |  || | ||  ||  |  |    || ||||| |  | | | | |                                                                         
CAGAGAGCAAGGACTTCGGGAGCTTGGACAACTTGAACAAGACCTTGTTTTTGGTGATGCTGGAATGAAGGATGTGATTAAATATTTGAGTACTCAAGAGgtttgcatctagttaacagttgttgatttactgtaatacttcatgagatattgagctgatgagctttataattttttgaactactgtacag------------------------------------------------------------------------

upper sequence: GLYMA17G14450.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv13s0019g05000.t01 (Vitis vinifera), 5'ss of exon 14
TAGGGAGTCAGGACTTCGGGAACTTGGGCAGCTGGAGCAAGATCTTGTTTTTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAAgtaagtaattctaagatgggaaatgaaaagggtgtaccttacacctagttagtcgacaaaataagaaagttttttattgcagaaaaaggtcatgaaattagaaatagaacttttgctttttcatttgttaaaattcatttatgtaccatgtttatgcag
| |||||   || ||||| ||||||||||| |||||||| || ||||| |||||||| ||||| |  ||||| || || || | | | |  |||||    || || ||   ||   ||   ||  ||  || || ||||||||| |    | ||               | | |||||  | |||||   | |  || |  |                                                         
TGGGGAGATGGGGCTTCGAGAACTTGGGCAACTGGAGCAGGACCTTGTGTTTGGAGATGCAGGAACAAAAGAAGTAATTAATTATCTGAGAACAAAACTGgtgag-aaccatatagtgaataa--aagtggatgcaccttacacatttccactc---------------tgtcttattaaataaaaatacctttgaaatgcag--------------------------------------------------------
















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|193354779|gb|FK320372.1|FK320372
EST:     TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAA                         GATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
genomic: TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAAgtaagtaatt ... gtttatgcagGATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
EST: gi|213600619|gb|DB956179.1|DB956179
EST:     TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAA                         GATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
genomic: TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAAgtaagtaatt ... gtttatgcagGATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
EST: gi|193553032|gb|FK507443.1|FK507443
EST:     TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAA                         GATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
genomic: TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAAgtaagtaatt ... gtttatgcagGATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
EST: gi|193416170|gb|FK378036.1|FK378036
EST:     TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAA                         GATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
genomic: TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAAgtaagtaatt ... gtttatgcagGATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
EST: gi|193322590|gb|FK290366.1|FK290366
EST:     TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAA                         GATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
genomic: TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAAgtaagtaatt ... gtttatgcagGATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
EST: gi|193329260|gb|FK295630.1|FK295630
EST:     TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAA                         GATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
genomic: TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAAgtaagtaatt ... gtttatgcagGATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
EST: gi|308098914|gb|HO760755.1|HO760755
EST:     TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAA                         GATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
genomic: TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAAgtaagtaatt ... gtttatgcagGATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
EST: gi|193398962|gb|FK363862.1|FK363862
EST:     TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAA                         GATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
genomic: TTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAAgtaagtaatt ... gtttatgcagGATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
EST: gi|193365623|gb|FK329820.1|FK329820
EST:     TTTTTTACTACAAACGAA                         GATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA
genomic: TTTTTTACTACAAACGAAgtaagtaatt ... gtttatgcagGATACAACTCGTGAAAATAAGTTGCGCTTGTTAATGATTCTTGCGTCCATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAGGGAGTCAGGACTTCGGGAACTTGGGCAGCTGGAGCAAGATCTTGTTTTTGGAGACGCAGGGATGAAAGATGTGATCAAATTTTTTACTACAAACGAAgtaagtaattctaagatgggaaatgaaaagggtgtaccttacacctagttagtcgacaaaataagaaagttttttattgcagaaaaaggtcatgaaattagaaatagaacttttgctttttcatttgttaaaattcatttatgtaccatgtttatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG