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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acattttattaagtgacgtagaaataataataataaaataatatattcccctctttttaacttgtgaaaattccattaaccgatgtgtcaaattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCTGCTTCAACTGGAGCAAC

Basic information

species Glycine max
transcript GLYMA01G20670.1
intron # 3
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|213598569|gb|DB958153.1|DB958153
EST:     AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAG                         GCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
genomic: AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAGgtgagttaat ... aattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
EST: gi|20448498|gb|BQ252622.1|BQ252622
EST:     AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAG                         GCAAGTGCAACTCCTAC
genomic: AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAGgtgagttaat ... aattatgcagGCAAGTGCAACTCCTAC
EST: gi|213598669|gb|DB964263.1|DB964263
EST:     AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAG                         GCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
genomic: AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAGgtgagttaat ... aattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
EST: gi|193672030|gb|FK616300.1|FK616300
EST:     CTACTTCAACTGCTCCCTTTCCAGTTAAG                         GCAAGTACAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCC
genomic: CTACTTCAACTGCT-CC-TT-CAGTTAAGgtgagttaat ... aattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCC
EST: gi|298187219|gb|HO034368.1|HO034368
EST:     AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAG                         GCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
genomic: AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAGgtgagttaat ... aattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
EST: gi|151395622|gb|EV265499.1|EV265499
EST:     AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAG                         GCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
genomic: AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAGgtgagttaat ... aattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
EST: gi|192323620|gb|FK017486.1|FK017486
EST:     AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAG                         GCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
genomic: AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAGgtgagttaat ... aattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
EST: gi|18040534|gb|BM308828.1|BM308828
EST:     AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAG                         GCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
genomic: AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAGgtgagttaat ... aattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
EST: gi|208300486|gb|GE100251.1|GE100251
EST:     AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAG                         GCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
genomic: AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAGgtgagttaat ... aattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
EST: gi|9986013|gb|BE660019.1|BE660019
EST:     AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAG                         GCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
genomic: AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAGgtgagttaat ... aattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
EST: gi|298169814|gb|HO018438.1|HO018438
EST:     AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAG                         GCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
genomic: AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAGgtgagttaat ... aattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
EST: gi|9986012|gb|BE660018.1|BE660018
EST:     AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAG                         GCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT
genomic: AGAGTTCATCTGGTGAAGGATCTACTACTTCAACTGCTCCTTCAGTTAAGgtgagttaat ... aattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcccctctttttaacttgtgaaaattccattaaccgatgtgtcaaattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCTGCTTCAACTGGAGCAAC
                            cattaac  putative branch site (score: 2)
        tttttaactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acattttattaagtgacgtagaaataataataataaaataatatattcccctctttttaacttgtgaaaattccattaaccgatgtgtcaaattatgcagGCAAGTGCAACTCCTACTTCAACCTCTGTGTCTGCTGCGCCTCAAGCTCCTGCTTCAACTGGAGCAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - -agaaataa
- - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccattaa