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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttctaccttgtacaagctgttgcattactttctcaaccatcattagttaatgcctgatctaactcgccaataagcctttttttaacgttataatgcagGATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAGCATTTGGGAATGAAGACAAATCCACATGAATAGATTGGGAAACGAATAA

Basic information

species Glycine max
transcript GLYMA08G26000.2
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|23057320|gb|BU577994.1|BU577994
EST:     GACTGTTGGCCACTGCATTAGCTGCTGCATATGTCACACGACTTGCAAAG                         GATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG
genomic: GACTGTTGGCCACTGCATTAGCTGCTGCATATGTCACACGACTTGCAAAGgtattcctgt ... tataatgcagGATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG
EST: gi|151405427|gb|EV275241.1|EV275241
EST:     GACTGTTGGCCACTGCATTAGCTGCTGCATATGTCACACGACTTGCAAAG                         GATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG
genomic: GACTGTTGGCCACTGCATTAGCTGCTGCATATGTCACACGACTTGCAAAGgtattcctgt ... tataatgcagGATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG
EST: gi|13478933|gb|BG508276.1|BG508276
EST:     GACTGTTGGCCACTGCATTAGCTGCTGCATATGTCACACGACTTGCAAAG                         GATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG
genomic: GACTGTTGGCCACTGCATTAGCTGCTGCATATGTCACACGACTTGCAAAGgtattcctgt ... tataatgcagGATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG
EST: gi|6914740|gb|AW396270.1|AW396270
EST:     GACTGTTGGCCACTGCATTAGCTGCTGCATATGTCACACGACTTGCAAAG                         GATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG
genomic: GACTGTTGGCCACTGCATTAGCTGCTGCATATGTCACACGACTTGCAAAGgtattcctgt ... tataatgcagGATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG
EST: gi|214004301|gb|DB984775.1|DB984775
EST:     GACTTGCAAAG                         GATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACA-ATACCCA
genomic: GACTTGCAAAGgtattcctgt ... tataatgcagGATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACA-ACCCA
EST: gi|209699649|gb|BW655728.1|BW655728
EST:     GACTGTTGGCCACTGCATTAGCTGCTGCATATGTCACACGACTTGCAAAG                         GATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG
genomic: GACTGTTGGCCACTGCATTAGCTGCTGCATATGTCACACGACTTGCAAAGgtattcctgt ... tataatgcagGATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG
EST: gi|51337968|gb|CO981834.1|CO981834
EST:     GACTGTTGGCCACTGCATTAGCTGCTGCATATGTCACACGACTTGCAAAG                         GATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG
genomic: GACTGTTGGCCACTGCATTAGCTGCTGCATATGTCACACGACTTGCAAAGgtattcctgt ... tataatgcagGATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG
EST: gi|120530795|gb|EH258928.1|EH258928
EST:     CACACGACTTGCAAAG                         GATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG
genomic: CACACGACTTGCAAAGgtattcctgt ... tataatgcagGATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagttaatgcctgatctaactcgccaataagcctttttttaacgttataatgcagGATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAGCATTTGGGAATGAAGACAAATCCACATGAATAGATTGGGAAACGAATAA
                                    ttttaac  putative branch site (score: 2)
                                 tttttttaacgttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttctaccttgtacaagctgttgcattactttctcaaccatcattagttaatgcctgatctaactcgccaataagcctttttttaacgttataatgcagGATGCTATAAAGGACATTGAATAGATCCGCTAGACAGTAGACACAACCCAGCATTTGGGAATGAAGACAAATCCACATGAATAGATTGGGAAACGAATAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - -taccttg
- - - - - - tacaagc
- - - - - - - - - - - -gcattac
- - - - - - - - - - - - - - - - - - - ccatcat
- - - - - - - - - - - - - - - - - - - - - - - - - aatgcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcgcca