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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgtactgtttagatgagttgttgccaagcttgaatgaattcttaagagggtgtgttttcaaagtttatactttactctgtatcctcttgttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAACAACATCGATCTTACTGCTGGTGACCTCATCAATCGATTATCTTTCCAG

Basic information

species Glycine max
transcript GLYMA01G12340.3
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|8670479|gb|BE191586.1|BE191586
EST:     AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTATCG                         GGTTCAAGTGCCATCTTCAGCGCTGATCCTTGTGGTGACTCAAGAGACAAC
genomic: AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCGgtatgtgtcc ... ttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
EST: gi|208288972|gb|GE088009.1|GE088009
EST:     AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCG                         GGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
genomic: AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCGgtatgtgtcc ... ttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
EST: gi|10255901|gb|BE823667.1|BE823667
EST:     AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCG                         GGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
genomic: AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCGgtatgtgtcc ... ttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
EST: gi|254314431|gb|GR832016.1|GR832016
EST:     AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCG                         GGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
genomic: AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCGgtatgtgtcc ... ttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
EST: gi|9564183|gb|BE473692.1|BE473692
EST:     AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCG                         GGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
genomic: AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCGgtatgtgtcc ... ttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
EST: gi|13252312|gb|BG363215.1|BG363215
EST:     AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCG                         GGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
genomic: AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCGgtatgtgtcc ... ttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
EST: gi|22524240|gb|BU083051.1|BU083051
EST:     AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCG                         GGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
genomic: AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCGgtatgtgtcc ... ttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
EST: gi|254330187|gb|GR839740.1|GR839740
EST:     AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCG                         GGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
genomic: AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCGgtatgtgtcc ... ttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
EST: gi|31466806|gb|CD408834.1|CD408834
EST:     AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCG                         GGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
genomic: AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCGgtatgtgtcc ... ttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
EST: gi|11275201|gb|BF325524.1|BF325524
EST:     AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCG                         GGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
genomic: AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCGgtatgtgtcc ... ttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
EST: gi|254338283|gb|GR849808.1|GR849808
EST:     AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCG                         GGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
genomic: AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCGgtatgtgtcc ... ttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
EST: gi|7590561|gb|AW706311.1|AW706311
EST:     AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCG                         GGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
genomic: AGAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCGgtatgtgtcc ... ttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
EST: gi|31474882|gb|CD416910.1|CD416910
EST:     GAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCG                         GGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC
genomic: GAACAAAGCTGCAGATGTGGATTCTCAAGCTACTTTGTCTAAGTTTTCGgtatgtgtcc ... ttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agagggtgtgttttcaaagtttatactttactctgtatcctcttgttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAACAACATCGATCTTACTGCTGGTGACCTCATCAATCGATTATCTTTCCAG
                                           tgttaat  putative branch site (score: 3)
                                     tcctcttgtt  CT-rich tract
          ttttcaaagtttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgtactgtttagatgagttgttgccaagcttgaatgaattcttaagagggtgtgttttcaaagtttatactttactctgtatcctcttgttaatttcagGGTTCAAGTGCCATCTCCAGCGCTGATCTTTTTGGTGACTCAAGAGACAACAACATCGATCTTACTGCTGGTGACCTCATCAATCGATTATCTTTCCAG

- - - - - - - - - -tgttgcc
- - - - - - - - - - - - - - - -tgaatga
- - - - - - - - - - - - - - - - - - - - - - - - gggtgtg