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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaattgcgttcaatactttgtgcattgattatgttaaatgatatgtcttgcaatttgtatcttattgctatgtcatgtgtgttttatgtttccctgtgaatggaagggagtgaacttggtaattaaatgaatgtatgctttctcatttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAAAGAAAGA

Basic information

species Glycine max
transcript GLYMA10G00490.1
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|26059399|gb|CA802313.1|CA802313
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|11413156|gb|BF425167.1|BF425167
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGG-ATGTTCCTCTACCTAAG                         G-ACGTCCGGTGGCTGAAGATGANATGTTCA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCA
EST: gi|17400258|gb|BM177032.1|BM177032
EST:     GCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGNTTCN-CTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: GCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATG-TTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|20498024|gb|BQ272954.1|BQ272954
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATG
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATG
EST: gi|15813104|gb|BI785379.1|BI785379
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|298179957|gb|HO025172.1|HO025172
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|5606189|gb|AI900287.1|AI900287
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|26043857|gb|CA782197.1|CA782197
EST:     AAAAGAGGAAGGAGACCTC-GGAAGAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AAAAGAGGAAGGAGAAGGCGGGAA-AATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|298178157|gb|HO027540.1|HO027540
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|209725840|gb|BW654703.1|BW654703
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|120530814|gb|EH258947.1|EH258947
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|298182139|gb|HO026314.1|HO026314
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|298189817|gb|HO038220.1|HO038220
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|209725841|gb|BW654704.1|BW654704
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|192329667|gb|FK022933.1|FK022933
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|192333080|gb|FK026409.1|FK026409
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
EST: gi|120530581|gb|EH258714.1|EH258714
EST:     AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAG                         GTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA
genomic: AGCAAAAGAGGAAGGAGAAGGCGGGAAAATGGGATGTTCCTCTACCTAAGgtgaaattgc ... atttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggaagggagtgaacttggtaattaaatgaatgtatgctttctcatttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAAAGAAAGA
                                    tgctttctcatttctt  CT-rich tract
                    taattaaatgaatgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaaattgcgttcaatactttgtgcattgattatgttaaatgatatgtcttgcaatttgtatcttattgctatgtcatgtgtgttttatgtttccctgtgaatggaagggagtgaacttggtaattaaatgaatgtatgctttctcatttcttcagGTACGTCCGGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGTACTGGTAAAAGAAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA