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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGCGATGCTTCATAAAGCTTTGGAGGGTGCAATAATACTGGAAACATTCCCCAAGACAACTGTGGACGTTTTTGCATTGGTGCTGGAATCTAGCGGCAgtaagcataatttttcatattgattttctatttaatttgtgattagtatagttcaggtattctttgatcaaggtttccaattacacaacagtcaaacaca...

Basic information

species Glycine max
transcript GLYMA11G20420.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G20420.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0004g02660.t01 (Vitis vinifera), 5'ss of exon 4
TGTGCGATGCTTCATAAAGCTTTGGAGGGTGCAATAATACTGGAAACATTCCCCAAGACAACTGTGGACGTTTTTGCATTGGTGCTGGAATCTAGCGGCAgtaagcataatttttcatattgattttctatttaatttgtgattagtatagtt-caggtattctttgatcaaggtttccaattacacaacagtcaaacaca
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TCCTCAATGCTTCATAAAGCTTTGGAGGGCGCCATAATAGTGGAGAGTTTCCCCAAGACAACGGTGGATGTTTTTGCATTGGTGCTGGAATCTGGTGGCAgtgagtccaatgtttt-tctggttttaacattcaacactgagtttatttagtagttgactttctatgcttagaaatttacgttttattagaaaaataaata
















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|298176888|gb|HO026895.1|HO026895
EST:     CCCCAAGACAACTGTGGACGTTTTTGCATTGGTGCTGGAATCTAGCGGCA                         GTGATCTCCCAGTTGTCATATCATGTGCTAGCCTTGCCCTTGCAGATGCTG
genomic: CCCCAAGACAACTGTGGACGTTTTTGCATTGGTGCTGGAATCTAGCGGCAgtaagcataa ... tgtgttgcagGTGATCTCCCAGTTGTCATATCATGTGCTAGCCTTGCCCTTGCAGATGCTG
EST: gi|192299065|gb|FG990393.1|FG990393
EST:     CCCCAAGACAACTGTGGACGTTTTTGCATTGGTGCTGGAATCTAGCGGCA                         GTGATCTCCCAGTTGTCATATCATGTGCTAGCCTTGCCCTTGCAGATGCTG
genomic: CCCCAAGACAACTGTGGACGTTTTTGCATTGGTGCTGGAATCTAGCGGCAgtaagcataa ... tgtgttgcagGTGATCTCCCAGTTGTCATATCATGTGCTAGCCTTGCCCTTGCAGATGCTG
EST: gi|41145620|gb|CK605831.1|CK605831
EST:     CCCCAAGACAACTGTGGACGTTTTTGCATTGGTGCTGGAATCTAGCGGCA                         GTGATCTCCCAGTTGTCATATCATGTGCTAGCCTTGCCCTTGCAGATGCTG
genomic: CCCCAAGACAACTGTGGACGTTTTTGCATTGGTGCTGGAATCTAGCGGCAgtaagcataa ... tgtgttgcagGTGATCTCCCAGTTGTCATATCATGTGCTAGCCTTGCCCTTGCAGATGCTG
EST: gi|192302684|gb|FG993704.1|FG993704
EST:     CCCCAAGACAACTGTGGACGTTTTTGCATTGGTGCTGGAATCTAGCGGCA                         GTGATCTCCCAGTTGTCATATCATGTGCTAGCCTTGCCCTTGCAGATGCTG
genomic: CCCCAAGACAACTGTGGACGTTTTTGCATTGGTGCTGGAATCTAGCGGCAgtaagcataa ... tgtgttgcagGTGATCTCCCAGTTGTCATATCATGTGCTAGCCTTGCCCTTGCAGATGCTG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTGCGATGCTTCATAAAGCTTTGGAGGGTGCAATAATACTGGAAACATTCCCCAAGACAACTGTGGACGTTTTTGCATTGGTGCTGGAATCTAGCGGCAgtaagcataatttttcatattgattttctatttaatttgtgattagtatagttcaggtattctttgatcaaggtttccaattacacaacagtcaaacaca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA