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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acaggtgttctgatacttatcttaaacaggtgctataaattccaactgcatacaatgaaatttgctataagtatttatgcaatatccttatcttaaacagGTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAGGCAGAATTTATACTCCAGAATTCCTAACAAGG

Basic information

species Glycine max
transcript GLYMA08G41630.1
intron # 7
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|10231875|gb|BE800763.1|BE800763
EST:     CTGTGATGAACTTGGGATTACAATAATTGCATATTCACCAATTGCTCAAG                         GTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAG
genomic: CTGTGATGAACTTGGGATTACAATAATTGCATATTCACCAATTGCTCAAGgtgaacttct ... tcttaaacagGTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAG
EST: gi|22524681|gb|BU083492.1|BU083492
EST:     CTGTGATGAACTTGGGATTACAATAATTGCATATTCACCAATTGCTCAAG                         GTGCTCTCACTGG
genomic: CTGTGATGAACTTGGGATTACAATAATTGCATATTCACCAATTGCTCAAGgtgaacttct ... tcttaaacagGTGCTCTCACTGG
EST: gi|31464900|gb|CD406928.1|CD406928
EST:     CTGTGATGAACTTGGGATTACCATAATTGCATATTCACCAATTGCTCAAG                         GTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAG
genomic: CTGTGATGAACTTGGGATTACAATAATTGCATATTCACCAATTGCTCAAGgtgaacttct ... tcttaaacagGTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAG
EST: gi|14205390|gb|BG839068.1|BG839068
EST:     CTGTGATGAACTTGGGATTACAATAATTGCATATTCACCAATTGCTCAAG                         GTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAG
genomic: CTGTGATGAACTTGGGATTACAATAATTGCATATTCACCAATTGCTCAAGgtgaacttct ... tcttaaacagGTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAG
EST: gi|7690984|gb|AW759119.1|AW759119
EST:     TTGGGANTTACAATAATTGCATATTCACCAATTGCTCAAG                         GTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAG
genomic: TTGGGA-TTACAATAATTGCATATTCACCAATTGCTCAAGgtgaacttct ... tcttaaacagGTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAG
EST: gi|9259707|gb|BE347854.1|BE347854
EST:     CTGTGATGAACTTGGGATTACAATAATTGCATATTCACCAATTGCTCAAG                         GTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAG
genomic: CTGTGATGAACTTGGGATTACAATAATTGCATATTCACCAATTGCTCAAGgtgaacttct ... tcttaaacagGTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAG
EST: gi|22928755|gb|BU545894.1|BU545894
EST:     CTGTGATGAACTTGGGATTACAATAATTGCATATTCACCAATTGCTCAAG                         GTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAG
genomic: CTGTGATGAACTTGGGATTACAATAATTGCATATTCACCAATTGCTCAAGgtgaacttct ... tcttaaacagGTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgcatacaatgaaatttgctataagtatttatgcaatatccttatcttaaacagGTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAGGCAGAATTTATACTCCAGAATTCCTAACAAGG
                                       tccttatctt  CT-rich tract
            aaatttgctataagta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acaggtgttctgatacttatcttaaacaggtgctataaattccaactgcatacaatgaaatttgctataagtatttatgcaatatccttatcttaaacagGTGCTCTCACTGGAAAGTACACTCCTGATAAACCACCAAGTGGGCCCCGAGGCAGAATTTATACTCCAGAATTCCTAACAAGG

- - - - -ctgatac
- - - - - - - - - - - - - caggtgc
- - - - - - - - - - - - - - - tgctata
- - - - - - - - - - - - - - - - - - - - tccaact
- - - - - - - - - - - - - - - - - - - - - - - -gcataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgcaa