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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttagatataaatggaatatttattgaaagacgatatttatctatttatgtttctgtcgaagcttatctattaatattttatcatttgattttatttcagGCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAAACAGAGTACCTTGCTTCTCTTGAG

Basic information

species Glycine max
transcript GLYMA19G42150.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G42150.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G05520.1 (Arabidopsis thaliana), 3'ss of exon 7
-----------------------------------tttagatataaatggaatatttattgaaagacgatatttatctatt---tatgtttctgtcgaagcttatctattaatat--tttatcatttgattttatttcagGCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAAACAGAGTACCTTGCTTCTCTTGAG
                                   | ||||    ||   |        |   | |  ||||  | | |      |  | | ||| |   || || ||    | |  || ||  |||| |    |  ||| || | || || || ||  |||||||| | |  |||||  | ||||||||||||||||||||||| ||||| |||
gtacctcattttatctgcgaaactgtgtacaataatgtagaccacaagccaggccaggctagcatataatatacaccaagggaacaaatatgtgtaggctctgatataaccttgtcgttcattttttgttccattgacagTCTGCAGATGACTGCGCGATTGCCATAGCCAATATTATCAGGCACCATGAAACAGAGTACCTTGCATCTCTAGAG
















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|27425324|gb|CA936844.1|CA936844
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG                         GCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatag ... tttatttcagGCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|9819909|gb|BE555352.1|BE555352
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG                         GCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatag ... tttatttcagGCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|9203355|gb|BE329641.1|BE329641
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG                         GCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatag ... tttatttcagGCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|7234639|gb|AW569975.1|AW569975
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG                         GCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGGCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatag ... tttatttcagGCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|151412172|gb|EV281984.1|EV281984
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG                         -CTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatag ... tttatttcagGCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|14516434|gb|BI095106.1|BI095106
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAG                         GCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatag ... tttatttcagGCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAA
EST: gi|14258566|gb|BG881474.1|BG881474
EST:     TGTGCACTTAGATGCAAAACATGAATGCAAAGATGCAACTCCTTTTTCAT                         GCTCCTGAAGATTGTGCCCTTGCCATAACAAGCATTATTCGTCACCATGA
genomic: TGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTC-TTTTTCAGgttaccatag ... tttatttcagGCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatgtttctgtcgaagcttatctattaatattttatcatttgattttatttcagGCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAAACAGAGTACCTTGCTTCTCTTGAG
                                            ttttatttc  CT-rich tract
              aagcttatctattaat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttagatataaatggaatatttattgaaagacgatatttatctatttatgtttctgtcgaagcttatctattaatattttatcatttgattttatttcagGCTCCTGAAGATTGTGCACTTGCCATAACAAGCATTATTCGTCACCATGAAACAGAGTACCTTGCTTCTCTTGAG

- - - - - - - - - - - - -gaaagac