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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattattactttttagatgtatggactctggagagacatgttaaatttggaagttggtgactatctgcgtgtttattgttgtcatttgcatgtatccttggaaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATGTATCCATACTGCCCTCCTCATATAACAAAACCCAAG

Basic information

species Glycine max
transcript GLYMA20G29700.1
intron # 4
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|151397058|gb|EV266931.1|EV266931
EST:     TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAG                         ATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
EST: gi|21257002|gb|BQ453890.1|BQ453890
EST:     TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAG                         ATAAGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
EST: gi|14259587|gb|BG882495.1|BG882495
EST:     TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAG                         ATAAGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
EST: gi|209717384|gb|BW659060.1|BW659060
EST:     TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAG                         ATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
EST: gi|9820239|gb|BE555749.1|BE555749
EST:     TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAG                         ATAAGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
EST: gi|192324565|gb|FK016456.1|FK016456
EST:     TGACTAGCAAGCTTGGTGCTAATTCGCCAGCTCTTGTGCCTGACTGGCAG                         ATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
EST: gi|151401044|gb|EV270858.1|EV270858
EST:     TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAG                         ATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
EST: gi|21257121|gb|BQ454009.1|BQ454009
EST:     TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAG                         ATAAGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
EST: gi|58021934|gb|CX708675.1|CX708675
EST:     TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAG                         ATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
EST: gi|192301040|gb|FG988925.1|FG988925
EST:     TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTAGCAG                         ATAGGCGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAAC-ATAATG
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
EST: gi|298196118|gb|HO044509.1|HO044509
EST:     TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAG                         ATAAGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
EST: gi|9899569|gb|BE608537.1|BE608537
EST:     TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAG                         ATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
EST: gi|193413135|gb|FK380870.1|FK380870
EST:     TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAG                         ATAGGTGAGTGTGTA
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTA
EST: gi|6566129|gb|AW233768.1|AW233768
EST:     TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAG                         ATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG
genomic: TGACTAGCAAGCTTGGTGCTAATTCACCAGCTCTTGTGCCTGACTGGCAGgtattattac ... aaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgactatctgcgtgtttattgttgtcatttgcatgtatccttggaaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATGTATCCATACTGCCCTCCTCATATAACAAAACCCAAG
               tttattgtt  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattattactttttagatgtatggactctggagagacatgttaaatttggaagttggtgactatctgcgtgtttattgttgtcatttgcatgtatccttggaaaactgcagATAGGTGAGTGTGTAGCAATCTGGTGGAGGCCAAATTTTGAAACCATAATGTATCCATACTGCCCTCCTCATATAACAAAACCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC