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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttatctccatgttgagtattttctttcaattatttcagcaccctacaggtattttaggacttgatagtgtattttttggttatgtagAGTATTCCAAGGCAAGTTTGGCTTGATAAAAGTGGGAAGTGGTTGATGCAGTGGCCAATTGAAGAGGTAGAAAAACTACGTGACAAACAAGTTAGCATAA

Basic information

species Glycine max
transcript GLYMA17G34590.1
intron # 3
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|6914499|gb|AW396029.1|AW396029
EST:     AGTGTGACACCACACAAGATGATTATGAGAAAGGATGGGCTGGTCTACAG                         AGTATTCCAAGGCAAGTTTGGCTTGATAAAAGTGGGAAGTGGTTGATGCAG
genomic: AGTGTGACACCACACAAGATGATTATGAGAAAGGATGGGCTGGTCTACAGgtattttatc ... ggttatgtagAGTATTCCAAGGCAAGTTTGGCTTGATAAAAGTGGGAAGTGGTTGATGCAG
EST: gi|9985767|gb|BE659875.1|BE659875
EST:     TGGGCTGGNCTACAG                         AGTATTCCAAGGCAAGTTTGGCTTGATAAAAGTGGGAAGTGGTTGATGCAG
genomic: TGGGCTGGTCTACAGgtattttatc ... ggttatgtagAGTATTCCAAGGCAAGTTTGGCTTGATAAAAGTGGGAAGTGGTTGATGCAG
EST: gi|254328462|gb|GR835427.1|GR835427
EST:     CACACAAGATGATTATGAGAAAGGATGGGCTGGTCTACAG                         AGTATTCCAAGGCAAGTTTGGCTTGATAAAAGTGGGAAGTGGTTGATGCAG
genomic: CACACAAGATGATTATGAGAAAGGATGGGCTGGTCTACAGgtattttatc ... ggttatgtagAGTATTCCAAGGCAAGTTTGGCTTGATAAAAGTGGGAAGTGGTTGATGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcagcaccctacaggtattttaggacttgatagtgtattttttggttatgtagAGTATTCCAAGGCAAGTTTGGCTTGATAAAAGTGGGAAGTGGTTGATGCAGTGGCCAATTGAAGAGGTAGAAAAACTACGTGACAAACAAGTTAGCATAA
                          acttgat  putative branch site (score: 5)
                                       ttttttg  putative PPT
                               atagtgtatttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattttatctccatgttgagtattttctttcaattatttcagcaccctacaggtattttaggacttgatagtgtattttttggttatgtagAGTATTCCAAGGCAAGTTTGGCTTGATAAAAGTGGGAAGTGGTTGATGCAGTGGCCAATTGAAGAGGTAGAAAAACTACGTGACAAACAAGTTAGCATAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG