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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agattaggatactcattaatttagacccggatttggagttgcaaaattaccttaaaatttattatattgattttcttcctttctgctttttatgcgtcagTCATTTTGTGAAGGTGAATTGCTGAAGAGATAGCAGATTTTTGAAGGAAGATGAATAACTCTGTTTCAGAAAACAGTTTCATCATTGAGAGTGATGAAGA

Basic information

species Glycine max
transcript GLYMA20G32260.1
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|209710223|gb|BW653601.1|BW653601
EST:     ATCACTAACTGCATATGCACAGAGAGTGTGTATGAGAACATAAAGCAAAG                         TCATTTTGTGAAGGTGAATTGCTTAAGAGATAGCAGATTTTTGAAGGAAGA
genomic: ATCACTAACTGCATATGCACAGAGAGTGTGTATGAGAACATAAAGCAAAGgtacttgtct ... tatgcgtcagTCATTTTGTGAAGGTGAATTGCTGAAGAGATAGCAGATTTTTGAAGGAAGA
EST: gi|209702921|gb|BW656018.1|BW656018
EST:     ATCACTAACTGCATATGCACAGAGAGTGTGTATGAGAACATAAAGCAAAG                         TCATTTTGTGAAGGTGAATTGCTTAAGAGATAGCAGATTTTTGAAGGAAGA
genomic: ATCACTAACTGCATATGCACAGAGAGTGTGTATGAGAACATAAAGCAAAGgtacttgtct ... tatgcgtcagTCATTTTGTGAAGGTGAATTGCTGAAGAGATAGCAGATTTTTGAAGGAAGA
EST: gi|15199491|gb|BI423857.1|BI423857
EST:     ATCACTAACTGCATATGCACAGAGAGTGTGTATGAGAACATAAAGCAAAG                         TCATTTTGTGAAGGTGAATTGCTGAAGAGATAGCAGATTTTTGAAGGAAGA
genomic: ATCACTAACTGCATATGCACAGAGAGTGTGTATGAGAACATAAAGCAAAGgtacttgtct ... tatgcgtcagTCATTTTGTGAAGGTGAATTGCTGAAGAGATAGCAGATTTTTGAAGGAAGA
EST: gi|193498055|gb|FK462547.1|FK462547
EST:     ATCACTAACTGCATATGCACAGAGAGTGTGTATGAGAACATAAAGCAAAG                         TCATTTTGTGAAGGTGAATTGCTGAAGAGATAGCAGATTTTTGAAGGAAGA
genomic: ATCACTAACTGCATATGCACAGAGAGTGTGTATGAGAACATAAAGCAAAGgtacttgtct ... tatgcgtcagTCATTTTGTGAAGGTGAATTGCTGAAGAGATAGCAGATTTTTGAAGGAAGA
EST: gi|209702869|gb|BW655991.1|BW655991
EST:     ATCACTAACTGCATATGCACAGAGAGTGTGTATGAGAACATAAAGCAAAG                         TCATTTTGTGAAGGTGAATTGCTTAAGAGATAGCAGATTTTTGAAGGAAGA
genomic: ATCACTAACTGCATATGCACAGAGAGTGTGTATGAGAACATAAAGCAAAGgtacttgtct ... tatgcgtcagTCATTTTGTGAAGGTGAATTGCTGAAGAGATAGCAGATTTTTGAAGGAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attaccttaaaatttattatattgattttcttcctttctgctttttatgcgtcagTCATTTTGTGAAGGTGAATTGCTGAAGAGATAGCAGATTTTTGAAGGAAGATGAATAACTCTGTTTCAGAAAACAGTTTCATCATTGAGAGTGATGAAGA
                   tattgat  putative branch site (score: 3)
                         ttttcttcctttctgc  CT-rich tract
      ttaaaatttattatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agattaggatactcattaatttagacccggatttggagttgcaaaattaccttaaaatttattatattgattttcttcctttctgctttttatgcgtcagTCATTTTGTGAAGGTGAATTGCTGAAGAGATAGCAGATTTTTGAAGGAAGATGAATAACTCTGTTTCAGAAAACAGTTTCATCATTGAGAGTGATGAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - ggatttg
- - - - - - - - - - - - - - - - - - agttgca