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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataaatatcgagactatctcccaaaaggatttattgacttattaatgataaaagcctcctactttacttgcatgcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTAACTTCAACT

Basic information

species Glycine max
transcript GLYMA0048S00280.2
intron # 2
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|192319150|gb|FK006906.1|FK006906
EST:     TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|19054280|gb|BM732947.1|BM732947
EST:     TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|254326906|gb|GR836515.1|GR836515
EST:     TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|7685922|gb|AW756570.1|AW756570
EST:     TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|9259144|gb|BE347291.1|BE347291
EST:     TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|254346378|gb|GR856100.1|GR856100
EST:     TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|298180188|gb|HO025403.1|HO025403
EST:     TCTTTGGAAATGTGCACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|10709506|gb|BF009230.1|BF009230
EST:     TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|192317205|gb|FK009792.1|FK009792
EST:     TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|16997071|gb|BM086443.1|BM086443
EST:     TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|192325277|gb|FK019148.1|FK019148
EST:     TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|6071945|gb|AW101332.1|AW101332
EST:     TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|5057387|gb|AI735863.1|AI735863
EST:     TCTT-GGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|7685834|gb|AW756482.1|AW756482
EST:     TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
EST: gi|192319151|gb|FK006907.1|FK006907
EST:     TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTG                         TTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA
genomic: TCTTTGGAAATGTGTACACCACTCTGGCAACCAGAAATGCCTTGCATTTGgtataaatat ... gcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttattgacttattaatgataaaagcctcctactttacttgcatgcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTAACTTCAACT
           tattaat  putative branch site (score: 2)
        acttattaatgataaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtataaatatcgagactatctcccaaaaggatttattgacttattaatgataaaagcctcctactttacttgcatgcatatgcagTTGGAGGTTGCTGGGAGAACGGATATACCGGTGGCAGAAGGATCTCATGTAACTTCAACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA