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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatccatttctatttcccctttttttctcattcaaagaaagttcgcggctgaaatgtttttttcgttgcactgaattgattaactgcccagACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCGGTTATTGAGAATGAG

Basic information

species Glycine max
transcript GLYMA10G43740.1
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|23063927|gb|BU578701.1|BU578701
EST:     ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAG                         ACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG
genomic: ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAGgtatccattt ... aactgcccagACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG
EST: gi|20448580|gb|BQ252704.1|BQ252704
EST:     ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAG                         ACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG
genomic: ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAGgtatccattt ... aactgcccagACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG
EST: gi|16279819|gb|BI943632.1|BI943632
EST:     ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAG                         ACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG
genomic: ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAGgtatccattt ... aactgcccagACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG
EST: gi|19452360|gb|BM953770.1|BM953770
EST:     ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAG                         ACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG
genomic: ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAGgtatccattt ... aactgcccagACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG
EST: gi|16281457|gb|BI944497.1|BI944497
EST:     ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAG                         ACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG
genomic: ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAGgtatccattt ... aactgcccagACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG
EST: gi|213608979|gb|DB962905.1|DB962905
EST:     ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAG                         ACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG
genomic: ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAGgtatccattt ... aactgcccagACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG
EST: gi|20448652|gb|BQ252776.1|BQ252776
EST:     ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAG                         ACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG
genomic: ACAATCGCATACCGGCAACCATCATCACCGGCTTTCTCGGCTCCGGCAAGgtatccattt ... aactgcccagACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaagttcgcggctgaaatgtttttttcgttgcactgaattgattaactgcccagACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCGGTTATTGAGAATGAG
                                         gattaac  putative branch site (score: 2)
             tgaaatgttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatccatttctatttcccctttttttctcattcaaagaaagttcgcggctgaaatgtttttttcgttgcactgaattgattaactgcccagACGACACTGCTGAACCATATTCTGACCGCGGAACATGGAAAGAAAATTGCGGTTATTGAGAATGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA