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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttatcttatctatcctctatgtagatttatgagttacataaaatttagatcatcttaccaatattttttaataatttttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTTGATGAGCTCATTCTTGCCTTCTCTCGAGAGGGACCCACCAAGGAGTATG

Basic information

species Glycine max
transcript GLYMA17G07050.1
intron # 15
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|15203188|gb|BI425956.1|BI425956
EST:     CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
genomic: CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
EST: gi|15202467|gb|BI425417.1|BI425417
EST:     GGAACCGTCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
genomic: GGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
EST: gi|21594304|gb|BQ610119.1|BQ610119
EST:     CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
genomic: CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
EST: gi|15203101|gb|BI425869.1|BI425869
EST:     CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
genomic: CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
EST: gi|254332042|gb|GR846245.1|GR846245
EST:     CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
genomic: CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
EST: gi|105633983|gb|DW247346.1|DW247346
EST:     CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGCCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCGCTTCGTTAATACTGGCGCACTT
genomic: CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
EST: gi|4286168|gb|AI441008.1|AI441008
EST:     TGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGGACCCG-CAAATG                         GACTACATCTATGAAG
genomic: TGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACC-GTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAG
EST: gi|58024838|gb|CX711579.1|CX711579
EST:     CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
genomic: CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
EST: gi|7147143|gb|AW509065.1|AW509065
EST:     CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
genomic: CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
EST: gi|10710524|gb|BF010242.1|BF010242
EST:     CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
genomic: CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
EST: gi|254341893|gb|GR853030.1|GR853030
EST:     CTGAACTCGGCCCCTCAGTTTTATTC-TTGGATGCAGGAACCGTCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
genomic: CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
EST: gi|254346951|gb|GR856673.1|GR856673
EST:     CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
genomic: CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
EST: gi|105634392|gb|DW247541.1|DW247541
EST:     CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
genomic: CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
EST: gi|14258698|gb|BG881606.1|BG881606
EST:     TGGATGCAGGAACCGTCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
genomic: TGGATGCAGGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
EST: gi|9258034|gb|BE346181.1|BE346181
EST:     CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATG                         GACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT
genomic: CTGAACTCGGCCCCTCAGTTTTATTCTTTGGATGCAGGAACCGTCAAATGgtgagttatc ... tttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttacataaaatttagatcatcttaccaatattttttaataatttttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTTGATGAGCTCATTCTTGCCTTCTCTCGAGAGGGACCCACCAAGGAGTATG
                                  ttttaat  putative branch site (score: 3)
                                           tttttatt  putative PPT
      ataaaatttagatcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttatcttatctatcctctatgtagatttatgagttacataaaatttagatcatcttaccaatattttttaataatttttattaaagGACTACATCTATGAAGACGAGTTGAGTCACTTCGTTAATACTGGCGCACTTGATGAGCTCATTCTTGCCTTCTCTCGAGAGGGACCCACCAAGGAGTATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG