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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtcaaataacaagaaatggttggttgatcttatccaacttgaatcataaaaaatcaatgaaattttaactgagaggacttaattaatgttctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG

Basic information

species Glycine max
transcript GLYMA20G39160.1
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|192329045|gb|FK019716.1|FK019716
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|7588538|gb|AW704261.1|AW704261
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGTGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAACCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|209722455|gb|BW668743.1|BW668743
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|4396007|gb|AI495004.1|AI495004
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|151410767|gb|EV280582.1|EV280582
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|298180094|gb|HO025309.1|HO025309
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|11274333|gb|BF324701.1|BF324701
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|9564779|gb|BE474288.1|BE474288
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|4290503|gb|AI438083.1|AI438083
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|298188417|gb|HO035110.1|HO035110
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|254333739|gb|GR848657.1|GR848657
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|192299466|gb|FG988750.1|FG988750
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|23726423|gb|BU761204.1|BU761204
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|192297462|gb|FG989871.1|FG989871
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|13478048|gb|BG507685.1|BG507685
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
EST: gi|21993736|gb|BQ785264.1|BQ785264
EST:     GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTG                         AAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA
genomic: GCCTGAAGCTGCCTTCAATTTCAATGGCGGCGCCAAGAAATCGAGGCCTGgtttgtcttt ... tctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cataaaaaatcaatgaaattttaactgagaggacttaattaatgttctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG
     aaaatcaatgaaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtcaaataacaagaaatggttggttgatcttatccaacttgaatcataaaaaatcaatgaaattttaactgagaggacttaattaatgttctgtaacagAAACGGACTCCTTTCCAACTGGTTTAGGAAGCAAATCGAAGCCATGCACAAAGTTTTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - -acaagaaa
- - - - - - - - -tggttgg
- - - - - - - - - - - - - - - - -tccaact
- - - - - - - - - - - - - - - - - - - - - - - - aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgaa