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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTCTTGTGGCGAACTTAGCAGCTGCCAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtcgttgttctatacaggctctcttttatttctctctccacttcatatctgagtaattcagtggactgacattttttattgtgcaattttttgtgacgcag

Basic information

species Glycine max
transcript GLYMA19G36630.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G36630.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv13s0019g04480.t01 (Vitis vinifera), 5'ss of exon 7
GTCTCTTGTGGCGAACTTAGCAGCTGCCAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtcgttgttctatacaggctctcttttatttctctctccacttcatatctgagtaattcagtggactgacattttttattgtgcaattttttgtgacgcag
||| ||  | || |||||| | ||||| |||||||||||||| || || |||||||| || ||||| |||||| ||||||   | |  ||  |  || |   || |   || ||| |  ||  |   ||| | |||    |    |  | | | | |  |  ||   ||                
GTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCCGAACACTTGAAGAGGCCTGAAAACTGGGCATTAGgtattattttctttcttgatgctt-ctattccttgtttgttgctatataacatgt-tgaactttcttttttatttaaactcctattttgacag---------------

upper sequence: GLYMA19G36630.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv13s0019g04470.t01 (Vitis vinifera), 5'ss of exon 7
GTCTCTTGTGGCGAACTTAGCAGCTGCCAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtcgttgttctatacaggctctcttttatttctctctccacttcatatctgagtaattcagtggactgacattttttattgtgcaattttttgtgacgcag
||| ||  | || |||||| | ||||| ||||||||||||||||| ||||||||||| || ||||| |||||||||||||   | |  ||  |  || |        || |||| ||        ||  |  ||   ||||    || |||  | |||||||||        | || ||||    
GTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTTGAAGAGGCCTGAAAACTGGGCACTAGgtattattttctttcttgatgc--------ttctattccttg------tttgttgctatataatatgctgaactttc-ttttttatttaaactcctattttgacag--
















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|192295218|gb|FG986937.1|FG986937
EST:     CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG                         TTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
genomic: CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtc ... tgtgacgcagTTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
EST: gi|151393153|gb|EV263028.1|EV263028
EST:     CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG                         TTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
genomic: CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtc ... tgtgacgcagTTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
EST: gi|26045675|gb|CA783183.1|CA783183
EST:     CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG                         TTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
genomic: CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtc ... tgtgacgcagTTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
EST: gi|298170787|gb|HO015763.1|HO015763
EST:     CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG                         TTGAAAAGGCCAAGTA
genomic: CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtc ... tgtgacgcagTTGAAAAGGCCAAGTA
EST: gi|6455199|gb|AW185882.1|AW185882
EST:     CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG                         TTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
genomic: CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtc ... tgtgacgcagTTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
EST: gi|192304064|gb|FG993894.1|FG993894
EST:     CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG                         TTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
genomic: CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtc ... tgtgacgcagTTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
EST: gi|298177311|gb|HO027092.1|HO027092
EST:     CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG                         TTGAAGAGGCCAAGTATA
genomic: CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtc ... tgtgacgcagTTGAAAAGGCCAAGTATA
EST: gi|298165993|gb|HO008964.1|HO008964
EST:     CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG                         TTGAAAAGGCCAAGTATA
genomic: CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtc ... tgtgacgcagTTGAAAAGGCCAAGTATA
EST: gi|298182073|gb|HO026248.1|HO026248
EST:     CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG                         TTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
genomic: CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtc ... tgtgacgcagTTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
EST: gi|26045783|gb|CA783264.1|CA783264
EST:     CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG                         TTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
genomic: CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtc ... tgtgacgcagTTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
EST: gi|192329140|gb|FK021127.1|FK021127
EST:     CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAG                         TTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC
genomic: CAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtc ... tgtgacgcagTTGAAAAGGCCAAGTATATTTATATTGCCGGCTTTTTCCTCACTGTATCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCTCTTGTGGCGAACTTAGCAGCTGCCAATTGCTACAAGTCTGATCATTTGAAGAGACCAGAAAATTGGGCACTAGgtaccctgtcgttgttctatacaggctctcttttatttctctctccacttcatatctgagtaattcagtggactgacattttttattgtgcaattttttgtgacgcag

- - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA