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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcaatttgaaatagaggtagtagtaactaatctccaactaggtagtaactaaatctccaaataactacttttctaacaagtctgcatcttgtttttccaGCTGAAATTCTATTGCCAAGTGATTGAGGATTCCTTTAAATGTGACCCCATAAAGCAAATGTCTTGGAATTTTTCATCAAATTTCATAAGCCTTTTATGG

Basic information

species Glycine max
transcript GLYMA18G46690.1
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|22522497|gb|BU081308.1|BU081308
EST:     GTTCTTGCAGAAATAGATATCCCAGAAACATATATAGATAATCTTCCCAA                         GCTGAAATTCTATTGCCAAGTGATTGAGGATTCCTTTAAATGTGACCCCAT
genomic: GTTCTTGCAGAAATAGATATCCCAGAAACATATATAGATAATCTTCCCAAggttagtcct ... tgtttttccaGCTGAAATTCTATTGCCAAGTGATTGAGGATTCCTTTAAATGTGACCCCAT
EST: gi|208284382|gb|GE085042.1|GE085042
EST:     GTTCTTGCAGAAATAGATATCCCAGAAACATATATAGATAATCTTCCCAA                         GCTGAAATTCTATTGCCAAGTGATTGAGGATTCCTTTAAATGTGACCCCAT
genomic: GTTCTTGCAGAAATAGATATCCCAGAAACATATATAGATAATCTTCCCAAggttagtcct ... tgtttttccaGCTGAAATTCTATTGCCAAGTGATTGAGGATTCCTTTAAATGTGACCCCAT
EST: gi|298197873|gb|HO039412.1|HO039412
EST:     GTTCTTGCAGAAATAGATATCCCAGAAACATATATAGATAATCTTCCCAA                         GCTGAAATTCTATTGCCAAGTGATTGAGGATTCCTTTAA
genomic: GTTCTTGCAGAAATAGATATCCCAGAAACATATATAGATAATCTTCCCAAggttagtcct ... tgtttttccaGCTGAAATTCTATTGCCAAGTGATTGAGGATTCCTTTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaactaaatctccaaataactacttttctaacaagtctgcatcttgtttttccaGCTGAAATTCTATTGCCAAGTGATTGAGGATTCCTTTAAATGTGACCCCATAAAGCAAATGTCTTGGAATTTTTCATCAAATTTCATAAGCCTTTTATGG
                          ttctaac  putative branch site (score: 1)
                                        catcttgtttttcc  putative PPT
              aaataactactttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atcaatttgaaatagaggtagtagtaactaatctccaactaggtagtaactaaatctccaaataactacttttctaacaagtctgcatcttgtttttccaGCTGAAATTCTATTGCCAAGTGATTGAGGATTCCTTTAAATGTGACCCCATAAAGCAAATGTCTTGGAATTTTTCATCAAATTTCATAAGCCTTTTATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - ccaacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgcatc