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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attctcatctatggcactactttcatagagaaagactatctaattcccttcaagattctgctcattttcctatctcatctttatgattttaaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACATTCTGCAAACTCCCAGGTGGTCGTCTCAAACCAGGAGAGAATG

Basic information

species Glycine max
transcript GLYMA20G29700.1
intron # 2
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|207800796|gb|GD775983.1|GD775983
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTTCTCCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|151397058|gb|EV266931.1|EV266931
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTCCTGCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|21257002|gb|BQ453890.1|BQ453890
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTTCTCCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|14259587|gb|BG882495.1|BG882495
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTTCTCCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|209717384|gb|BW659060.1|BW659060
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|9820239|gb|BE555749.1|BE555749
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTTCTCCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|192324565|gb|FK016456.1|FK016456
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCCTCTGCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|151401044|gb|EV270858.1|EV270858
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|21257121|gb|BQ454009.1|BQ454009
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTTCTCCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|58021934|gb|CX708675.1|CX708675
EST:     CTATATGAAGGAGGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
genomic: CTATATGAAGGA-GGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|192301040|gb|FG988925.1|FG988925
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|298196118|gb|HO044509.1|HO044509
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTTCTCCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|9899569|gb|BE608537.1|BE608537
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|207707132|gb|GD687624.1|GD687624
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTTCTCCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
EST: gi|6566129|gb|AW233768.1|AW233768
EST:     CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTG                         GTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA
genomic: CTATATGAAGGAGGGAATGAGGACCAGTGTGGAAGGAATTTTACTGgtatgttaag ... aaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccttcaagattctgctcattttcctatctcatctttatgattttaaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACATTCTGCAAACTCCCAGGTGGTCGTCTCAAACCAGGAGAGAATG
                             tcatctttatgatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attctcatctatggcactactttcatagagaaagactatctaattcccttcaagattctgctcattttcctatctcatctttatgattttaaatttgcagGTACAAGAGCACAATCATCCTCATATACTTCTTCTGCAAATTGGAAACACATTCTGCAAACTCCCAGGTGGTCGTCTCAAACCAGGAGAGAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - -gcactac
- - - - - - - - - - - - - - -gaaagac
- - - - - - - - - - - - - - - - - - - - - - tcccttc