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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attatatactctctgctattgattttgtagtcgttgagaatacttgaattttcatgcattcaacatatactagtgagtgacttttactaaatcttatcagGTAGACAAGGCCAAGGGAGAGCTGCACAATGTCTTTATTAAAAAGCTATACAG

Basic information

species Glycine max
transcript GLYMA04G16340.1
intron # 17
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|298170905|gb|HO015881.1|HO015881
EST:     TCAGAAAAAATGTTGAGGATTTGGTCCCTAAAGCAATTATGTATTTCTTG                         GTAGACAAGGCCAAGGGAGAGCTGCACAATGTCTTTATTAAAAAGCTATAC
genomic: TCAGAAAAAATGTTGAGGATTTGGTCCCTAAAGCAATTATGTATTTCTTGgtactttacc ... atcttatcagGTAGACAAGGCCAAGGGAGAGCTGCACAATGTCTTTATTAAAAAGCTATAC
EST: gi|57574191|gb|CX547166.1|CX547166
EST:     TCAGAAAAAATGTTGAGGATTTGGTCCCTAAAGCAATTATGTATTTCTTG                         GTAGACAAGGCCAAGGGAGAGCTGCACAATGTCTTTATTAAAAAGCTATAC
genomic: TCAGAAAAAATGTTGAGGATTTGGTCCCTAAAGCAATTATGTATTTCTTGgtactttacc ... atcttatcagGTAGACAAGGCCAAGGGAGAGCTGCACAATGTCTTTATTAAAAAGCTATAC
EST: gi|15000938|gb|BI321752.1|BI321752
EST:     CAATTATGTATTTCTTG                         GTAGACAAGGCCAAGGGAGAGCTGCACAATGTCTTTATTAAAAAGCTATAC
genomic: CAATTATGTATTTCTTGgtactttacc ... atcttatcagGTAGACAAGGCCAAGGGAGAGCTGCACAATGTCTTTATTAAAAAGCTATAC
EST: gi|57574359|gb|CX547334.1|CX547334
EST:     TCAGAAAAAATGTTGAGGATTTGGTCCCTAAAGCAATTATGTATTTCTTG                         GTAGACAAGGCCAAGGGAGAGCTGCACAATGTCTTTATTAAAAAGCTATAC
genomic: TCAGAAAAAATGTTGAGGATTTGGTCCCTAAAGCAATTATGTATTTCTTGgtactttacc ... atcttatcagGTAGACAAGGCCAAGGGAGAGCTGCACAATGTCTTTATTAAAAAGCTATAC
EST: gi|193616942|gb|FK570618.1|FK570618
EST:     TCAGAAAAAATGTTGAGGATTTGGTCCCTAAACCAATTATGTATTTCTTG                         GTAGACAAGGCCAAGGGAGAGCTGCACAATGTCTTTATTAAAAAG
genomic: TCAGAAAAAATGTTGAGGATTTGGTCCCTAAAGCAATTATGTATTTCTTGgtactttacc ... atcttatcagGTAGACAAGGCCAAGGGAGAGCTGCACAATGTCTTTATTAAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaattttcatgcattcaacatatactagtgagtgacttttactaaatcttatcagGTAGACAAGGCCAAGGGAGAGCTGCACAATGTCTTTATTAAAAAGCTATACAG
                                       tactaaa  putative branch site (score: 1)
                                              tcttatc  CT-rich tract
                                    ttttactaaatcttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attatatactctctgctattgattttgtagtcgttgagaatacttgaattttcatgcattcaacatatactagtgagtgacttttactaaatcttatcagGTAGACAAGGCCAAGGGAGAGCTGCACAATGTCTTTATTAAAAAGCTATACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC