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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtatcatactggtttactgttcaattttttttgctgaattttattattatccctccaatgagcctcccgttatggcatttttgtcaatggttgttttcttccatagGTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGTTTTGCTTTTGTTACAATGGAATCTGCTGAGGATGCGGAGCGCTGTATCA

Basic information

species Glycine max
transcript GLYMA16G23010.1
intron # 6
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|213616943|gb|DB959255.1|DB959255
EST:     CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAG                         GTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
genomic: CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAGgtgagtatca ... tcttccatagGTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
EST: gi|7590792|gb|AW706463.1|AW706463
EST:     CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAG                         GTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
genomic: CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAGgtgagtatca ... tcttccatagGTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
EST: gi|21675874|gb|BQ628225.1|BQ628225
EST:     AGAGGAGCATTTCTCCAAGGAAGGAAAG                         GTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
genomic: AGAGGAGCATTTCTCCAAGGAAGGAAAGgtgagtatca ... tcttccatagGTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
EST: gi|192304150|gb|FG993490.1|FG993490
EST:     CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAG                         GTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
genomic: CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAGgtgagtatca ... tcttccatagGTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
EST: gi|120532707|gb|EH260840.1|EH260840
EST:     CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAG                         GTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
genomic: CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAGgtgagtatca ... tcttccatagGTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
EST: gi|298176497|gb|HO026732.1|HO026732
EST:     CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAG                         GTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
genomic: CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAGgtgagtatca ... tcttccatagGTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
EST: gi|213588543|gb|DB957621.1|DB957621
EST:     CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAG                         GTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
genomic: CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAGgtgagtatca ... tcttccatagGTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
EST: gi|120532787|gb|EH260920.1|EH260920
EST:     CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAG                         GTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
genomic: CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAGgtgagtatca ... tcttccatagGTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
EST: gi|192322695|gb|FK014386.1|FK014386
EST:     CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAG                         GTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
genomic: CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAGgtgagtatca ... tcttccatagGTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
EST: gi|192321434|gb|FK011734.1|FK011734
EST:     CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAG                         GTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT
genomic: CAAGGGTCACTGAAAGAGACCTAGAGGAGCATTTCTCCAAGGAAGGAAAGgtgagtatca ... tcttccatagGTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctccaatgagcctcccgttatggcatttttgtcaatggttgttttcttccatagGTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGTTTTGCTTTTGTTACAATGGAATCTGCTGAGGATGCGGAGCGCTGTATCA
                                       ttgttttcttccat  CT-rich tract
                         atttttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtatcatactggtttactgttcaattttttttgctgaattttattattatccctccaatgagcctcccgttatggcatttttgtcaatggttgttttcttccatagGTTTCTTCATGTTTTCTTGTGGTGGAGCCCCGTACACGGATTTCTCGTGGTTTTGCTTTTGTTACAATGGAATCTGCTGAGGATGCGGAGCGCTGTATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG