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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgaagtgttcggaatatgtggaattgagctctgattttagcctacctttgttcttaattaatgtaaaattaaccttgcgattcgttatgttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGTACGGATCTAGAAGGCTATTTAGCAGTGGTTCTGGAAAAATACTGAGCGA

Basic information

species Glycine max
transcript GLYMA12G09600.1
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|33388268|gb|CA851475.1|CA851475
EST:     ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGANCTGAGNNTG                         AAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
genomic: ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACTGAGTCTGgtaatttatt ... ttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
EST: gi|16346323|gb|BI971918.1|BI971918
EST:     CCCTCTCTGGGCTCTCCACTGAACTGAGTCTG                         AAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
genomic: CCCTCTCTGGGCTCTCCACTGAACTGAGTCTGgtaatttatt ... ttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
EST: gi|151398999|gb|EV268870.1|EV268870
EST:     ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACTGAGTCTG                         AAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
genomic: ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACTGAGTCTGgtaatttatt ... ttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
EST: gi|105632335|gb|DW246419.1|DW246419
EST:     TCTGGGCTCTCCACGGAACTGAGTCTG                         AAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGG
genomic: TCTGGGCTCTCCACTGAACTGAGTCTGgtaatttatt ... ttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGG
EST: gi|192326512|gb|FK018819.1|FK018819
EST:     ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACTGAGTCTG                         AAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
genomic: ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACTGAGTCTGgtaatttatt ... ttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
EST: gi|5126760|gb|AI748496.1|AI748496
EST:     CTCCACTGAACTGAGTCTG                         AAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
genomic: CTCCACTGAACTGAGTCTGgtaatttatt ... ttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
EST: gi|10253437|gb|BE821203.1|BE821203
EST:     CTCCACTGAACTGAGNCTG                         AAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
genomic: CTCCACTGAACTGAGTCTGgtaatttatt ... ttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
EST: gi|192301404|gb|FG998396.1|FG998396
EST:     ACACATTGCTTCTGCTAACCCTCTCTGGGTTCTCCACTGAACTGAGTCTG                         AAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
genomic: ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACTGAGTCTGgtaatttatt ... ttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
EST: gi|151411066|gb|EV280877.1|EV280877
EST:     ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACCGAGTCTG                         AAGAGGGAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
genomic: ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACTGAGTCTGgtaatttatt ... ttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
EST: gi|151411525|gb|EV281336.1|EV281336
EST:     ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACTGAGTCTG                         AAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
genomic: ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACTGAGTCTGgtaatttatt ... ttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
EST: gi|151412650|gb|EV282462.1|EV282462
EST:     ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACTGAGTCT-                         --GAGGAAAACATTTAACTAACTGCAATAGCTGCACGTGTGGCTGCAAGGT
genomic: ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACTGAGTCTGgtaatttatt ... ttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
EST: gi|33390403|gb|CA853598.1|CA853598
EST:     ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACTGAGTCTG                         AAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT
genomic: ACACATTGCTTCTGCTAACCCTCTCTGGGCTCTCCACTGAACTGAGTCTGgtaatttatt ... ttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctttgttcttaattaatgtaaaattaaccttgcgattcgttatgttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGTACGGATCTAGAAGGCTATTTAGCAGTGGTTCTGGAAAAATACTGAGCGA
                      aattaac  putative branch site (score: 2)
      ttcttaattaatgtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaagtgttcggaatatgtggaattgagctctgattttagcctacctttgttcttaattaatgtaaaattaaccttgcgattcgttatgttatttacagAAGAGGAAAACATTTAACTAACTGCAATGGCTGCACGTGTGGCTGCAAGGTACGGATCTAGAAGGCTATTTAGCAGTGGTTCTGGAAAAATACTGAGCGA

-tgaagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - accttgc