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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttctttttctcacctaattctttcagccttacacatttcttgagaagtctaactgactgactattttttacccgttcatgtagTTATTAGAGGAGAGAAAAGCAGAAAGGAATATGCAGCTTCGCTTCAGAGACATAGGGCTGCTGTTATTATACAAAAGCGGATGAAAACAGTATTTTCAAG

Basic information

species Glycine max
transcript GLYMA10G43230.1
intron # 19
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|19934507|gb|BQ079537.1|BQ079537
EST:     TCGTTGTTATCGCAAGGAGCTTTGGAGAGGAATCACTACTCTCCAATCAT                         TTATTAGAGGAGAGAAAAGCAGAAAGGAATATGCAGCTTCGCTTCAGAGAC
genomic: TCGTTGTTATCGCAAGGAGCTTTGGAGAGGAATCACTACTCTCCAATCATgtattttctt ... gttcatgtagTTATTAGAGGAGAGAAAAGCAGAAAGGAATATGCAGCTTCGCTTCAGAGAC
EST: gi|193513350|gb|FK471458.1|FK471458
EST:     TCGTTGTTATCGCAAGGAGCTTTGGAGAGGAATCACTACTCTCCAATCAT                         TTATTAGAGGAGAGAAAAGCAGAAAGGAATATGCAGCTTCGCTTCAGAGAC
genomic: TCGTTGTTATCGCAAGGAGCTTTGGAGAGGAATCACTACTCTCCAATCATgtattttctt ... gttcatgtagTTATTAGAGGAGAGAAAAGCAGAAAGGAATATGCAGCTTCGCTTCAGAGAC
EST: gi|18039602|gb|BM307896.1|BM307896
EST:     TCGTTGTTATCGCAAGGAGCTTTGGAGAGGAATCACTACTCTCCAATCAT                         TTATTAGAGGAGAGAAAAGCAGAAAGGAATATGCAGCTTTGCTTCAGAGAC
genomic: TCGTTGTTATCGCAAGGAGCTTTGGAGAGGAATCACTACTCTCCAATCATgtattttctt ... gttcatgtagTTATTAGAGGAGAGAAAAGCAGAAAGGAATATGCAGCTTCGCTTCAGAGAC
EST: gi|193715297|gb|FK652072.1|FK652072
EST:     TCGTTGTTATCGCAAGGAGCTTTGGAGAGGAATCACTACTCTCCAATCAT                         TTATTTAGAGGAGAGAAAAGCAGAAAGGAATATGCAGCTTCGCTTCAGAGA
genomic: TCGTTGTTATCGCAAGGAGCTTTGGAGAGGAATCACTACTCTCCAATCATgtattttctt ... gttcatgtagTTATT-AGAGGAGAGAAAAGCAGAAAGGAATATGCAGCTTCGCTTCAGAGA
EST: gi|193570175|gb|FK523972.1|FK523972
EST:     CGTTGTTATCGCAAGGAGCTTTGGAGAGGAATCACTACTTCTCCAATCAT                         TTATTAGAGGAGAGAAAAGCAGAAAGGAATATGCAGCTTCGCTTCAGNG-C
genomic: CGTTGTTATCGCAAGGAGCTTTGGAGAGGAATCACTACT-CTCCAATCATgtattttctt ... gttcatgtagTTATTAGAGGAGAGAAAAGCAGAAAGGAATATGCAGCTTCGCTTCAGAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacacatttcttgagaagtctaactgactgactattttttacccgttcatgtagTTATTAGAGGAGAGAAAAGCAGAAAGGAATATGCAGCTTCGCTTCAGAGACATAGGGCTGCTGTTATTATACAAAAGCGGATGAAAACAGTATTTTCAAG
                          gactgac  putative branch site (score: 2)
                                   ttttttacccgttc  putative PPT
                               actatttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattttctttttctcacctaattctttcagccttacacatttcttgagaagtctaactgactgactattttttacccgttcatgtagTTATTAGAGGAGAGAAAAGCAGAAAGGAATATGCAGCTTCGCTTCAGAGACATAGGGCTGCTGTTATTATACAAAAGCGGATGAAAACAGTATTTTCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT