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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctcatttatagcaaacttacaaatttcttcgcatttttgttaattatttccgtttatcgctccctgattccttcgtgtgaaaaaattgtgagacgattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGAACTAAAGTGGCGCCTTCACCTGCGCTGAAGTATGCGGCACTCGCGTCGT

Basic information

species Glycine max
transcript GLYMA20G02270.1
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|192304722|gb|FG998766.1|FG998766
EST:     GCCCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|8827736|gb|BE211466.1|BE211466
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|298196142|gb|HO044533.1|HO044533
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|193577335|gb|FK535732.1|FK535732
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGAT
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGAT
EST: gi|18040363|gb|BM308657.1|BM308657
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|8825966|gb|BE209696.1|BE209696
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|192327109|gb|FK015501.1|FK015501
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|151411717|gb|EV281528.1|EV281528
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|209707223|gb|BW656841.1|BW656841
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|213606853|gb|DB961036.1|DB961036
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|192318966|gb|FK009046.1|FK009046
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|298175712|gb|HO018309.1|HO018309
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|298184891|gb|HO030104.1|HO030104
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|298184669|gb|HO029882.1|HO029882
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|192329539|gb|FK021881.1|FK021881
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|151407955|gb|EV277770.1|EV277770
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|7233986|gb|AW569327.1|AW569327
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|5760822|gb|AI966185.1|AI966185
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|26059620|gb|CA802534.1|CA802534
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|58023697|gb|CX710438.1|CX710438
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|58024773|gb|CX711514.1|CX711514
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTGGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|254326747|gb|GR836356.1|GR836356
EST:     GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: GACCTCGAACCCTCTCTCTTCTCTCCTCCGAAATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
EST: gi|192318995|gb|FK009047.1|FK009047
EST:     ATTCGTAACCTCGAAAAG                         TTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA
genomic: ATTCGTAACCTCGAAAAGgttctcattt ... gattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgtttatcgctccctgattccttcgtgtgaaaaaattgtgagacgattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGAACTAAAGTGGCGCCTTCACCTGCGCTGAAGTATGCGGCACTCGCGTCGT
            ccctgat  putative branch site (score: 4)
                            tgaaaaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttctcatttatagcaaacttacaaatttcttcgcatttttgttaattatttccgtttatcgctccctgattccttcgtgtgaaaaaattgtgagacgattttgcagTTATCGTCAGAGGAAGCTTCTGCGCAGATTCCGGCGCCGATTTCGACCGGAACTAAAGTGGCGCCTTCACCTGCGCTGAAGTATGCGGCACTCGCGTCGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG