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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTCTCCATTTCTTTGCTGTTGCAATATACGGTGTTGGCCGTCTATTGTTACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCGgtaagtattattctattatttttatttcagattttgcgtccgaataaatagcaggaaagttaactccgtagaatcaaaattttcttgtgttag

Basic information

species Glycine max
transcript GLYMA0041S00260.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA0041S00260.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv18s0001g08550.t01 (Vitis vinifera), 5'ss of exon 7
GGTTCTCCATTTCTTTGCTGTTGCAATATACGGTGTTGGCCGTCTATTGTTACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCGgtaagtattatt--ctattatttttatt--tcagattttgcgtccgaataaatagcaggaaagttaactccgtagaatcaaaattttcttgtgttag
||||   || |||||||| || |||||||  |||||||| ||| ||||| | |||||||||||||| ||  | |||||||| |||||  || |||| || || ||||||  |  || ||||||||||   |   |  ||   ||    | |||          | || |     |   ||                 
GGTTTGTCACTTCTTTGCGGTGGCAATATTTGGTGTTGGTCGTTTATTGCTGCCATTTCCTTCACCAAAACGTGTATGGATTGGAGCTAGAATAATTTCAgtgagtatttgtgtcttttatttttataaatagaaacttttttcttcctgaattctcaagttatgaatttgtctgctgcag----------------
















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|208194438|gb|GD992523.1|GD992523
EST:     ATCGGAGCCCGATTAATCTCG                         GGTGCATCTGCAATCATCCTTCCCATAATTAAGGCCGAAGGGATTCGTCAG
genomic: ATCGGAGCCCGATTAATCTCGgtaagtatta ... cttgtgttagGGTGCATCTGCAATCATCCTTCCCATAATTAAGGCCGAAGGGATTCGTCAG
EST: gi|18038806|gb|BM307100.1|BM307100
EST:     TACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCG                         GGTGCATCTGCAATCATCCTTCCCATAATTAAGGCCGAAAGGATTCCTCAG
genomic: TACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCGgtaagtatta ... cttgtgttagGGTGCATCTGCAATCATCCTTCCCATAATTAAGGCCGAAGGGATTCGTCAG
EST: gi|31305155|gb|CD390358.1|CD390358
EST:     TACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCG                         GGTGCATCTGCAATCATCCTTCCCATAATTAAGGCCGAAGGGATTCGTCAG
genomic: TACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCGgtaagtatta ... cttgtgttagGGTGCATCTGCAATCATCCTTCCCATAATTAAGGCCGAAGGGATTCGTCAG
EST: gi|10236348|gb|BE805236.1|BE805236
EST:     TACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCG                         GGTGCATCTGCAATCATCCTTCCCATAATTAAGGCCCGAAGG-ATTCGTCA
genomic: TACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCGgtaagtatta ... cttgtgttagGGTGCATCTGCAATCATCCTTCCCATAATTAAGGCC-GAAGGGATTCGTCA
EST: gi|208181099|gb|GD980166.1|GD980166
EST:     TACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCG                         GGTGCATCTGCAATCATCCTTCCCATAATT
genomic: TACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCGgtaagtatta ... cttgtgttagGGTGCATCTGCAATCATCCTTCCCATAATT
EST: gi|7588053|gb|AW703857.1|AW703857
EST:     TACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCG                         GGTGCATCTGCAATCATCCTTCCCATAATTAAGGCCGAAGGGATTCGTCAG
genomic: TACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCGgtaagtatta ... cttgtgttagGGTGCATCTGCAATCATCCTTCCCATAATTAAGGCCGAAGGGATTCGTCAG
EST: gi|13563482|gb|BG551702.1|BG551702
EST:     TACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCG                         GGTGCATCTGCAATCATCCTTCCCATAATTAAGGCCGAAGGGATTCGTCAG
genomic: TACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCGgtaagtatta ... cttgtgttagGGTGCATCTGCAATCATCCTTCCCATAATTAAGGCCGAAGGGATTCGTCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTTCTCCATTTCTTTGCTGTTGCAATATACGGTGTTGGCCGTCTATTGTTACCATTTCCTTCACCTAAGAGAGTATGGATCGGAGCCCGATTAATCTCGgtaagtattattctattatttttatttcagattttgcgtccgaataaatagcaggaaagttaactccgtagaatcaaaattttcttgtgttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA