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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATTGAGTGCCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctctaaaaccctatagtatttttcagtataaatgcttcattttgttgattcctattgtttttatctacttgttttcccctgaattagttggtgat...

Basic information

species Glycine max
transcript GLYMA13G38420.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G38420.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ06425 (Selaginella moellendorffii), 5'ss of exon 2
----------------------------------------GTATTGAGTGCCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgct-------ctaaaaccctatagtattttt--cagtataaatgcttcattttgttgattcctattgtttttatctacttgttttcccctgaattagttggtgat
                                        | || ||||||||||| |||||||| |||||||| ||||| |||||||| || || ||||||| |           | | | |||| |  ||| |  || |  |||     |  ||||| ||| |                                            
GACAACTGCGCGATTTGCCGGAATCACATCATGGATCTGTGCATCGAGTGCCAGGCAAACCAGGCCAGCGCCACGAGCGAAGAATGCACCGTTGCCTGGGgtaagagaagatgatcatagctctattggttttgtgacaatgcaaaacacactctttgtggatccag------------------------------------------
















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|213610718|gb|DB961193.1|DB961193
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
EST: gi|192330257|gb|FK020557.1|FK020557
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
EST: gi|151404234|gb|EV274044.1|EV274044
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
EST: gi|151411010|gb|EV280821.1|EV280821
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
EST: gi|209715859|gb|BW674418.1|BW674418
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
EST: gi|21594409|gb|BQ610149.1|BQ610149
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
EST: gi|57574392|gb|CX547367.1|CX547367
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
EST: gi|18038971|gb|BM307265.1|BM307265
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
EST: gi|209715858|gb|BW674417.1|BW674417
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
EST: gi|7589690|gb|AW705459.1|AW705459
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
EST: gi|163921009|gb|EH039455.1|EH039455
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGCAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
EST: gi|57574160|gb|CX547135.1|CX547135
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
EST: gi|21677079|gb|BQ629430.1|BQ629430
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCCATTGCATAAGCCGATGGCTCAAGA
EST: gi|213587487|gb|DB979107.1|DB979107
EST:     CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG                         GAGTTTGTAACCATGCTTTTCACTTCCGATA-CATAAGCCGATGGCTCAAG
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctcta ... tcttgtacagGAGTTTGTAACCATGCTTTTCACTTCC-ATTGCATAAGCCGATGGCTCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATTGAGTGCCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctctaaaaccctatagtatttttcagtataaatgcttcattttgttgattcctattgtttttatctacttgttttcccctgaattagttggtgat

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