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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataccccacgttacaaagttcacttctttttctctcatcatttctgggtttctttccttttcctcattctagaagcatgcatggtcatggagtatcaaaatcatattgtccacaattagacatttagttcctgaataattaataagtcccaagttcaattcgactgctgattaacttgttataattgtcagGTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGTGTGGGTGCCAGATTTGGCAGAGCTATTGTGTCCAAAGAGAAAAATGCAA

Basic information

species Glycine max
transcript GLYMA11G02540.1
intron # 1
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|193435824|gb|FK399428.1|FK399428
EST:     CCCAAAAAG-CCGGTTGCGAGAACCAGTTCGTTCTG                         GTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
genomic: CCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTGgtatacccca ... taattgtcagGTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
EST: gi|192310356|gb|FK002236.1|FK002236
EST:     ACGACGGTTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTG                         GTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
genomic: ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTGgtatacccca ... taattgtcagGTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
EST: gi|209716106|gb|BW668645.1|BW668645
EST:     ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTG                         GTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
genomic: ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTGgtatacccca ... taattgtcagGTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
EST: gi|254341536|gb|GR852673.1|GR852673
EST:     ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTG                         GTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
genomic: ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTGgtatacccca ... taattgtcagGTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
EST: gi|298185066|gb|HO030279.1|HO030279
EST:     ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTG                         GTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
genomic: ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTGgtatacccca ... taattgtcagGTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
EST: gi|208216069|gb|GE008977.1|GE008977
EST:     CCGGTTGCGAGAACCAGTTCGTTCTG                         GTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
genomic: CCGGTTGCGAGAACCAGTTCGTTCTGgtatacccca ... taattgtcagGTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
EST: gi|213597069|gb|DB968164.1|DB968164
EST:     ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTG                         GTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
genomic: ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTGgtatacccca ... taattgtcagGTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
EST: gi|193305542|gb|FK270003.1|FK270003
EST:     ACGACGATTCA-CTCCCAAAA-GCCCGGTTGCGAGAACCAGTTCGTTCTG                         GTAAAAGTGCAAACTT
genomic: ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTGgtatacccca ... taattgtcagGTAAAAGTGCAAACTT
EST: gi|193395721|gb|FK364024.1|FK364024
EST:     CGACGATTCAACTCCCAAAA-GCCCGGTTGACGAGAACCAGTTCGTTCTG                         GTAAAAGTGCAAACTT
genomic: CGACGATTCAACTCCCAAAAAGCCCGGTTG-CGAGAACCAGTTCGTTCTGgtatacccca ... taattgtcagGTAAAAGTGCAAACTT
EST: gi|298179000|gb|HO024735.1|HO024735
EST:     ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTG                         GTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
genomic: ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTGgtatacccca ... taattgtcagGTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
EST: gi|213606574|gb|DB972509.1|DB972509
EST:     ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTG                         GTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT
genomic: ACGACGATTCAACTCCCAAAAAGCCCGGTTGCGAGAACCAGTTCGTTCTGgtatacccca ... taattgtcagGTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattaataagtcccaagttcaattcgactgctgattaacttgttataattgtcagGTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGTGTGGGTGCCAGATTTGGCAGAGCTATTGTGTCCAAAGAGAAAAATGCAA
                                gattaac  putative branch site (score: 2)
 attaacttgttataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtataccccacgttacaaagttcacttctttttctctcatcatttctgggtttctttccttttcctcattctagaagcatgcatggtcatggagtatcaaaatcatattgtccacaattagacatttagttcctgaataattaataagtcccaagttcaattcgactgctgattaacttgttataattgtcagGTAAAAGTGCAAACTTGGGTCAATGGTGTCGAGGATGTTGAATTTGTTGGTGTGGGTGCCAGATTTGGCAGAGCTATTGTGTCCAAAGAGAAAAATGCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA