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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatgacattcattgaagcatgacctgtgtcacacagtatgctaagtttcaaatagctgttattgaagactgttggtttttatgtttttgttcatttacagGAATGATACTGGTTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGGTTCATCTGAAAG

Basic information

species Glycine max
transcript GLYMA09G04910.1
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|213619621|gb|DB965567.1|DB965567
EST:     GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACC                         GAATGATACTGGCTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG
genomic: GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACCgtaagtatat ... tcatttacagGAATGATACTGGTTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG
EST: gi|192331343|gb|FK019632.1|FK019632
EST:     GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACC                         GAATGATACTGGTTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG
genomic: GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACCgtaagtatat ... tcatttacagGAATGATACTGGTTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG
EST: gi|19934922|gb|BQ079952.1|BQ079952
EST:     GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACC                         GAATGATACTGGTTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG
genomic: GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACCgtaagtatat ... tcatttacagGAATGATACTGGTTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG
EST: gi|8827691|gb|BE211421.1|BE211421
EST:     GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACC                         GAATGATACTGGCTNTCANAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG
genomic: GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACCgtaagtatat ... tcatttacagGAATGATACTGGTTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG
EST: gi|193496805|gb|FK460767.1|FK460767
EST:     GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACC                         GAATGATACTGGTTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG
genomic: GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACCgtaagtatat ... tcatttacagGAATGATACTGGTTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG
EST: gi|213603558|gb|DB962704.1|DB962704
EST:     GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACC                         GAATGATACTGGCTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG
genomic: GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACCgtaagtatat ... tcatttacagGAATGATACTGGTTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG
EST: gi|209725601|gb|BW657981.1|BW657981
EST:     GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACC                         GAATGATACTGGCTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG
genomic: GGACCCCAAAATGCCTTGGTTGTTGGTCCAACTATCCCATCCACAACACCgtaagtatat ... tcatttacagGAATGATACTGGTTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcaaatagctgttattgaagactgttggtttttatgtttttgttcatttacagGAATGATACTGGTTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGGTTCATCTGAAAG
                                      tttttgttc  CT-rich tract
                              tttttatgtttttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatgacattcattgaagcatgacctgtgtcacacagtatgctaagtttcaaatagctgttattgaagactgttggtttttatgtttttgttcatttacagGAATGATACTGGTTTTCAGAACAAAAGTACAGCGGTTGTTTCAGCCTCTGGTTCATCTGAAAG

- - acattca
- - - - - - - - -catgacc
- - - - - - - - - - - - - - -cacacag
- - - - - - - - - - - - - - - - - - - tgctaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - gctgtta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actgttg