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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtttttctgtatcaagtagtgaataatttcagggtttggttgcctttcacgaggctaattatcatctttctaacatgcatacttcctctcttaatgtagGTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTGATAGTGGCAGCTCTGTGCCGCCTGGTTTCTTGCCTACAGCACCTTCAAT

Basic information

species Glycine max
transcript GLYMA02G43410.1
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|254338359|gb|GR845609.1|GR845609
EST:     TGTTGAATTAACTCAAG                         GTGTGTACCAGCAACTGCAGGAG-TTGAGCAAAAGATCTATGGACCGATTG
genomic: TGTTGAATTAACTCAAGgtatgtttgt ... cttaatgtagGTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
EST: gi|13312099|gb|BG405750.1|BG405750
EST:     GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAG                         GTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
genomic: GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAGgtatgtttgt ... cttaatgtagGTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
EST: gi|193366312|gb|FK333687.1|FK333687
EST:     GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAG                         GTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
genomic: GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAGgtatgtttgt ... cttaatgtagGTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
EST: gi|6227891|gb|AW156490.1|AW156490
EST:     GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAG                         GTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
genomic: GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAGgtatgtttgt ... cttaatgtagGTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
EST: gi|21994618|gb|BQ786146.1|BQ786146
EST:     GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAG                         GTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
genomic: GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAGgtatgtttgt ... cttaatgtagGTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
EST: gi|31471137|gb|CD413165.1|CD413165
EST:     GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAG                         GTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
genomic: GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAGgtatgtttgt ... cttaatgtagGTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
EST: gi|9984091|gb|BE658248.1|BE658248
EST:     GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAG                         GTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
genomic: GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAGgtatgtttgt ... cttaatgtagGTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
EST: gi|37995039|gb|CF806628.1|CF806628
EST:     GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAG                         GTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
genomic: GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAGgtatgtttgt ... cttaatgtagGTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
EST: gi|192311001|gb|FK001610.1|FK001610
EST:     GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAG                         GTGTGTGCCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
genomic: GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAGgtatgtttgt ... cttaatgtagGTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
EST: gi|298173348|gb|HO016684.1|HO016684
EST:     GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAG                         GTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG
genomic: GAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTAACTCAAGgtatgtttgt ... cttaatgtagGTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcacgaggctaattatcatctttctaacatgcatacttcctctcttaatgtagGTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTGATAGTGGCAGCTCTGTGCCGCCTGGTTTCTTGCCTACAGCACCTTCAAT
                                 catacttcctctctt  CT-rich tract
           taattatcatcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtttttctgtatcaagtagtgaataatttcagggtttggttgcctttcacgaggctaattatcatctttctaacatgcatacttcctctcttaatgtagGTGTGTACCAGCAACTGCAGGAGTTTGAGCAAAAGATCTATGGACCGATTGATAGTGGCAGCTCTGTGCCGCCTGGTTTCTTGCCTACAGCACCTTCAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - -ttctgta
- - - - - - - - - - - - - - - - gggtttg
- - - - - - - - - - - - - - - - - - - -gttgcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttcctc