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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGACTCGGTGCTAAAACATGCATCCAGTGATTTCAAGAAAATGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAGgtttgaataatacttttgataaaaggaggttatacactctttttcgttccagtttttctggtctgatacgttgttttaatcatcag

Basic information

species Glycine max
transcript GLYMA17G14450.1
intron # 19
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 19
lower sequence: Vv13s0019g05000.t01 (Vitis vinifera), 5'ss of exon 19
CGACTCGGTGCTAAAACATGCATCCAGTGATTTCAAGAAAATGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAGgtttgaataa-tacttttgataaaaggaggttatacactctttttcgttccagtttttctggtctgatacgttg-ttttaatcatcag
 || ||  | || | |||||||||||||||||||||||||||||| || || || ||| |||| ||||| |||||||| ||  |||| ||||| ||   || |  |||| ||          | |  | |  |  | | |||     |  || ||| |||   |  |||| ||   |||
TGATTCAATACTGAGACATGCATCCAGTGATTTCAAGAAAATGGGCCAGCGCATTTTTGTATTTATTGTAGGTGGAGCTACTCGATCCGAGgtatgggaaagtttttttcat---------ctgtttattgatggttgctcctaggctattgttctcataaaataattttcattcccag
















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|209703155|gb|BW673314.1|BW673314
EST:     TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAG                         CTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
genomic: TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAGgtttgaataa ... taatcatcagCTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
EST: gi|213606905|gb|DB974354.1|DB974354
EST:     TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAG                         CTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
genomic: TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAGgtttgaataa ... taatcatcagCTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
EST: gi|58014859|gb|CX701601.1|CX701601
EST:     TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAG                         CTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
genomic: TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAGgtttgaataa ... taatcatcagCTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
EST: gi|254340092|gb|GR858217.1|GR858217
EST:     TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAG                         CTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
genomic: TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAGgtttgaataa ... taatcatcagCTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
EST: gi|208143354|gb|GD943268.1|GD943268
EST:     TGGGGCAAAGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAG                         CTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
genomic: TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAGgtttgaataa ... taatcatcagCTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
EST: gi|254321303|gb|GR824620.1|GR824620
EST:     TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAG                         CTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
genomic: TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAGgtttgaataa ... taatcatcagCTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
EST: gi|6666591|gb|AW278050.1|AW278050
EST:     TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAG                         CTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
genomic: TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAGgtttgaataa ... taatcatcagCTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
EST: gi|208193157|gb|GD991202.1|GD991202
EST:     ATTGTTGGTGGAGTCAACCAGATCTGAG                         CTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
genomic: ATTGTTGGTGGAG-CAACCAGATCTGAGgtttgaataa ... taatcatcagCTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
EST: gi|213613420|gb|DB974617.1|DB974617
EST:     ACGAATATTTATATTCATTGTTAGACAAGCAACCAGAAGAGAG                         CTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
genomic: ACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAGgtttgaataa ... taatcatcagCTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
EST: gi|209720988|gb|BW682467.1|BW682467
EST:     TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAG                         CTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
genomic: TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAGgtttgaataa ... taatcatcagCTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
EST: gi|208292619|gb|GE093741.1|GE093741
EST:     TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAG                         CTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA
genomic: TGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAGgtttgaataa ... taatcatcagCTTAGGATATGCCACAAGCTTACTGGTAAGCTGAAGAGGGAAGTTATTCTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGACTCGGTGCTAAAACATGCATCCAGTGATTTCAAGAAAATGGGGCAACGAATATTTATATTCATTGTTGGTGGAGCAACCAGATCTGAGgtttgaataatacttttgataaaaggaggttatacactctttttcgttccagtttttctggtctgatacgttgttttaatcatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA