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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattttcatgactgagaatcgtgagattttgaatgtggttggagatgactgtatgttttaatattgaatgtaactgaatctctcttgactcttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACTTCGGTTTTGAGGACAGATCAATTAACTTTGATCAAGTTGATATGTAGGG

Basic information

species Glycine max
transcript GLYMA13G29180.1
intron # 26
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|254337539|gb|GR845216.1|GR845216
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGGCCAAGAACAGGCTCCATCAATCAGAC
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGG-CCAAGAACAGGCTCCATCAATCAGAC
EST: gi|207696141|gb|GD677286.1|GD677286
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAG
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAG
EST: gi|193328958|gb|FK295202.1|FK295202
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATG
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATG
EST: gi|14990595|gb|BI316268.1|BI316268
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCATACT
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
EST: gi|21993848|gb|BQ785376.1|BQ785376
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
EST: gi|51343963|gb|CO984696.1|CO984696
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
EST: gi|14991704|gb|BI317377.1|BI317377
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
EST: gi|17518512|gb|BM187562.1|BM187562
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
EST: gi|12773241|gb|BG238168.1|BG238168
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCCAGAACAGGCTCCATCAATCAGACT
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
EST: gi|10844030|gb|BF067376.1|BF067376
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
EST: gi|193661287|gb|FK605713.1|FK605713
EST:     CCAAGTATCCCCAGAGGGATAGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAA
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAA
EST: gi|13252700|gb|BG363603.1|BG363603
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
EST: gi|193663834|gb|FK614198.1|FK614198
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGA
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGA
EST: gi|9820834|gb|BE556344.1|BE556344
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
EST: gi|7684868|gb|AW755516.1|AW755516
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
EST: gi|8285985|gb|BE023605.1|BE023605
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
EST: gi|207765489|gb|GD738660.1|GD738660
EST:     CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
genomic: CCAAGTATCCCCAGAGGGATGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
EST: gi|22932345|gb|BU549484.1|BU549484
EST:     TGGTGGTCATCGCTTTATAAAATGATTGAAG                         GTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT
genomic: TGGTGGTCATCGCTTTATAAAATGATTGAAGgtattgtttt ... cttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgactgtatgttttaatattgaatgtaactgaatctctcttgactcttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACTTCGGTTTTGAGGACAGATCAATTAACTTTGATCAAGTTGATATGTAGGG
                                     tcttgac  putative branch site (score: 3)
                                 tctctcttgactctt  CT-rich tract
      tatgttttaatattga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattttcatgactgagaatcgtgagattttgaatgtggttggagatgactgtatgttttaatattgaatgtaactgaatctctcttgactcttgtatcagGTCTTGCTATGATGAGCAGATTGGCCAAGAACAGGCTCCATCAATCAGACTTCGGTTTTGAGGACAGATCAATTAACTTTGATCAAGTTGATATGTAGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - -tcatgac
- - - - - - - - - - - - - - - - - -tggttgg
- - - - - - - - - - - - - - - - - - - - - - - - -tgtatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgta