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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caatctggctcatattatgcatggtgtcaatgtgtcatattgtggttcttttactcagctagtttgctttctcatctaaattgtgtgttgtcttttgcagCAGCGGGCTCCAGAATCTCAGAGTAGACAGTCAAAGCCATTGCAACCAAAAGATGAGGATGAAGAACTGGACGATCAAGATGATGATGAACATGGAGAGA

Basic information

species Glycine max
transcript GLYMA16G00680.1
intron # 4
splice site 3'
intron type U2

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|192310431|gb|FG999496.1|FG999496
EST:     CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAA-G--                         CAGCGGGCTCCAGAATCTCAGAGTAGACAGTCAAAGCCATTGCAACCAAAA
genomic: CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCAgtaataatat ... tcttttgcagCAGCGGGCTCCAGAATCTCAGAGTAGACAGTCAAAGCCATTGCAACCAAAA
EST: gi|33387896|gb|CA851103.1|CA851103
EST:     CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCA                         CAGCGGGCTCCAGAATCTCAGAGTAGACAGTCAAAGCCATTGCAACCAAAA
genomic: CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCAgtaataatat ... tcttttgcagCAGCGGGCTCCAGAATCTCAGAGTAGACAGTCAAAGCCATTGCAACCAAAA
EST: gi|18039170|gb|BM307464.1|BM307464
EST:     CTTCAGTTTCTTTCCACAGTGGCAGCAAGTCTAAGTCCAGCTCT-----A                         -AGCGGGCTCCAGAATCTCAGAGTAGACAGTCAAAGCCATTGCAACCAAAA
genomic: CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCAgtaataatat ... tcttttgcagCAGCGGGCTCCAGAATCTCAGAGTAGACAGTCAAAGCCATTGCAACCAAAA
EST: gi|151408751|gb|EV278559.1|EV278559
EST:     CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGT--                         --G-GG-CTCCAGAATCTCAGAGTAGACAGTCAAAGCCATTGCAACCAAAA
genomic: CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCAgtaataatat ... tcttttgcagCAGCGGGCTCCAGAATCTCAGAGTAGACAGTCAAAGCCATTGCAACCAAAA
EST: gi|192300250|gb|FG989372.1|FG989372
EST:     CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCA                         CAGCGGGCTCCAGAATCTCAGAGTAGACAGTCAAAGCCATTGCAACCAAAA
genomic: CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCAgtaataatat ... tcttttgcagCAGCGGGCTCCAGAATCTCAGAGTAGACAGTCAAAGCCATTGCAACCAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttttactcagctagtttgctttctcatctaaattgtgtgttgtcttttgcagCAGCGGGCTCCAGAATCTCAGAGTAGACAGTCAAAGCCATTGCAACCAAAAGATGAGGATGAAGAACTGGACGATCAAGATGATGATGAACATGGAGAGA
                            atctaaa  putative branch site (score: 3)
                                          ttgtctttt  putative PPT
                            atctaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caatctggctcatattatgcatggtgtcaatgtgtcatattgtggttcttttactcagctagtttgctttctcatctaaattgtgtgttgtcttttgcagCAGCGGGCTCCAGAATCTCAGAGTAGACAGTCAAAGCCATTGCAACCAAAAGATGAGGATGAAGAACTGGACGATCAAGATGATGATGAACATGGAGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - gcatggt
- - - - - - - - - - - - - -caatgtg
- - - - - - - - - - - - - - - - - - - - tgtggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgt