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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGTGGTAATACACTGTCGAGAGCTGCACTAAGTTTTGCGCAAGCCCATGCTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAGgtagtatatacatgttgatatgtaagtatgcttatgtgtggagtgtttatgtatgagttcattgagcagtacttgcaattgcaagattataaggttcaaa...

Basic information

species Glycine max
transcript GLYMA11G11950.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G11950.3 (Glycine max), 5'ss of exon 4
lower sequence: Vv18s0001g13530.t01 (Vitis vinifera), 5'ss of exon 4
CAGTGGTAATACACTGTCGAGAGCTGCACTAAGTTTTGCGCAAGCCCATGCTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAGgtagtatatacatgttgatatgtaagtatgcttatgtgtggag-tgtttatgtatgagtt---cattgagcagtacttgcaattgcaagattataaggttcaaa--
|||||| | |||  | || | ||||||| |||| |||||   ||| | ||||||||| || ||||||||||||||  |||| ||||||||||| ||  ||||   || |  |||||  | ||     |  || ||  ||  |  | |  |||    |  |    ||| | ||  |     |||  |      ||   || ||||  
CAGTGGCAGTACCTTATCTAAAGCTGCATTAAGCTTTGCTAGAGCTCGTGCTCAAATGGAAAAGGAGCGTGGAAATCTACTGAAAGCTCTTGGCACCAAGgtttgatctg-atgttattgtg-----acactcataagtaaaaatatgcatgcgcaaaatatgtatttaacaagaaacaaaatgcctgctagatttagtccaaatt
















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|298189490|gb|HO037893.1|HO037893
EST:     CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAG                         GTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGC
genomic: CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAGgtagtatata ... tgccgattagGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGC
EST: gi|298176009|gb|HO015414.1|HO015414
EST:     CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAG                         GTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCT
genomic: CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAGgtagtatata ... tgccgattagGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCT
EST: gi|298180588|gb|HO025675.1|HO025675
EST:     CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAG                         GTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCT
genomic: CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAGgtagtatata ... tgccgattagGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCT
EST: gi|15285961|gb|BI469852.1|BI469852
EST:     CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAG                         GTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCT
genomic: CTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAGgtagtatata ... tgccgattagGTTGCAGAGCCATTAAGGGCAATGGTGGTGGGAGCTCCATTGGAGGATGCT

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGTGGTAATACACTGTCGAGAGCTGCACTAAGTTTTGCGCAAGCCCATGCTCAAATTGAGAAGGAGCGTGGAAACTTACTAAAAGCTCTTGGGACACAGgtagtatatacatgttgatatgtaagtatgcttatgtgtggagtgtttatgtatgagttcattgagcagtacttgcaattgcaagattataaggttcaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG