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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAGgcaaggacattttgcttttttgatttgaagttttactttttgagttagagtcgaactacaaagtaataaatttatcgtgtgctgatgccatgcatttattttccag

Basic information

species Glycine max
transcript GLYMA16G20730.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G20730.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv02s0087g00740.t01 (Vitis vinifera), 5'ss of exon 13
TTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAGgcaaggacattttgcttttttgatttgaagttttactttttgagttagagtcgaactacaa--agtaataaatt--tatcgtgtgctgatgccatgcatt-tatttt-ccag
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TTCAAATCAGTATTCTCATTATTCAAGGATGTCAAAGTCATCCAATTCTCAACGATGCAAGATGCTTTCCTCGGTTTCACTGACAAGgcaag----tttcactctccttccctta--tttcattattagagtgacaaatatattatgttcagtaatcatatgctgacaagaagtcgtgccatgcaaaatatgtgatcag
















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|58021216|gb|CX707958.1|CX707958
EST:     TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAG                         GAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
genomic: TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAGgcaaggacat ... tattttccagGAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
EST: gi|58023099|gb|CX709840.1|CX709840
EST:     TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAG                         GAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
genomic: TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAGgcaaggacat ... tattttccagGAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
EST: gi|58024281|gb|CX711022.1|CX711022
EST:     TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAG                         GAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
genomic: TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAGgcaaggacat ... tattttccagGAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
EST: gi|58016055|gb|CX702797.1|CX702797
EST:     TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAG                         GAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
genomic: TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAGgcaaggacat ... tattttccagGAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
EST: gi|254347413|gb|GR853662.1|GR853662
EST:     TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAG                         GAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
genomic: TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAGgcaaggacat ... tattttccagGAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
EST: gi|151407166|gb|EV276981.1|EV276981
EST:     TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAG                         GAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
genomic: TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAGgcaaggacat ... tattttccagGAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
EST: gi|58017910|gb|CX704652.1|CX704652
EST:     TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAG                         GAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
genomic: TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAGgcaaggacat ... tattttccagGAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
EST: gi|17023093|gb|BM094127.1|BM094127
EST:     TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAG                         GAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATTG
genomic: TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAGgcaaggacat ... tattttccagGAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATAT-G
EST: gi|16344896|gb|BI970491.1|BI970491
EST:     TTATCAAGTTCNCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGNNAAG                         GAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
genomic: TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAGgcaaggacat ... tattttccagGAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
EST: gi|16347112|gb|BI972707.1|BI972707
EST:     TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAG                         GAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG
genomic: TTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAGgcaaggacat ... tattttccagGAAAGGGAAGATAAATTCAGAAACCGTGTTAAGCGGTATGTGGGCATATGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTATGAAAGTATTCTCATCATTCAAGGATGTAAAAGTTATCAAGTTCTCTTCAGTGCAAGAGGCATTCACAGGTTTCACTGACAAGgcaaggacattttgcttttttgatttgaagttttactttttgagttagagtcgaactacaaagtaataaatttatcgtgtgctgatgccatgcatttattttccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG