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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catgtcatgtagagatcggtttaaactatgaataggtaatgtattataactgaagtgaaatgataaaattaattctggttttgatttggcaaagagcagaGTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCATCCATGCTGAATCGG

Basic information

species Glycine max
transcript GLYMA18G47820.1
intron # 9
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|22524186|gb|BU082997.1|BU082997
EST:     TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTA                         GTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
genomic: TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTGtaagttatca ... aaagagcagaGTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
EST: gi|10235081|gb|BE803969.1|BE803969
EST:     TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTA                         GTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
genomic: TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTGtaagttatca ... aaagagcagaGTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
EST: gi|23728081|gb|BU762085.1|BU762085
EST:     TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTA                         CTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
genomic: TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTGtaagttatca ... aaagagcagaGTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
EST: gi|10234295|gb|BE803183.1|BE803183
EST:     TATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTA                         GTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
genomic: TATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTGtaagttatca ... aaagagcagaGTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
EST: gi|9259723|gb|BE347870.1|BE347870
EST:     TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTA                         GTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
genomic: TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTGtaagttatca ... aaagagcagaGTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
EST: gi|20812365|gb|BQ296843.1|BQ296843
EST:     TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTA                         GTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
genomic: TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTGtaagttatca ... aaagagcagaGTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
EST: gi|11411513|gb|BF423524.1|BF423524
EST:     TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTA                         GTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
genomic: TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTGtaagttatca ... aaagagcagaGTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
EST: gi|15286897|gb|BI470788.1|BI470788
EST:     TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTA                         GTGATGAAGTAGCAAGTTCATGGCTAAACTTTTTTGCAGTCAGGAAAGCCA
genomic: TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTGtaagttatca ... aaagagcagaGTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
EST: gi|308099158|gb|HO760999.1|HO760999
EST:     TGTTACATTATGGCCCCAGTTGGCTCAAACTAGGCACGTCGCATGTGTTA                         GTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA
genomic: TGTTCCATTATGGCCCCAATTGGCTCAAACTAGGCACGTCGCATGTGTTGtaagttatca ... aaagagcagaGTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataactgaagtgaaatgataaaattaattctggttttgatttggcaaagagcagaGTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCATCCATGCTGAATCGG
       aagtgaaatgataaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catgtcatgtagagatcggtttaaactatgaataggtaatgtattataactgaagtgaaatgataaaattaattctggttttgatttggcaaagagcagaGTGATGAAGTAGCAAGTTCATGGCTAAACAACGTTGCAGTCAGGAAAGCCATCCATGCTGAATCGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
catgtca
- - - - - - - - - - - - -ctatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - tgaagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatttg