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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattaaatggattttttctttgcctgattttgtaattactataaaaatttagaatttaaccttattttgtactttgcagGACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCT

Basic information

species Glycine max
transcript GLYMA05G25320.1
intron # 5
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|19054013|gb|BM732680.1|BM732680
EST:     TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAG                         GACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT
genomic: TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAGgtaattaaat ... tactttgcagGACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT
EST: gi|209697835|gb|BW663952.1|BW663952
EST:     TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAG                         GACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT
genomic: TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAGgtaattaaat ... tactttgcagGACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT
EST: gi|6455727|gb|AW186410.1|AW186410
EST:     TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAG                         GACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT
genomic: TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAGgtaattaaat ... tactttgcagGACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT
EST: gi|254326866|gb|GR836475.1|GR836475
EST:     TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAG                         GACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT
genomic: TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAGgtaattaaat ... tactttgcagGACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT
EST: gi|254343632|gb|GR857388.1|GR857388
EST:     TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAG                         GACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT
genomic: TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAGgtaattaaat ... tactttgcagGACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT
EST: gi|51335099|gb|CO978965.1|CO978965
EST:     TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAG                         GACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT
genomic: TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAGgtaattaaat ... tactttgcagGACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT
EST: gi|13481254|gb|BG510597.1|BG510597
EST:     TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAG                         GACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT
genomic: TGACATCATTGCCAGATTTTAAATCAGCCTTTCCCAAATGGCAACCTAAGgtaattaaat ... tactttgcagGACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgattttgtaattactataaaaatttagaatttaaccttattttgtactttgcagGACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCT
                             atttaac  putative branch site (score: 3)
     ttgtaattactataaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattaaatggattttttctttgcctgattttgtaattactataaaaatttagaatttaaccttattttgtactttgcagGACCTGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG