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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctctgaagttcttatcttgttttgtgcagaaaaaacaccaattgcactttaagttttgcttgctattgatttgagctgtatttttacctcttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGTGCAGTCACTAAGCCTCCTAATTTATCAATTGTCACGGAATATTTGTCAA

Basic information

species Glycine max
transcript GLYMA19G37570.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G37570.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G059671_T01 (Zea mays), 3'ss of exon 7
gtatgctctgaagttcttatcttgttttgtgcagaaaaaacaccaattgcactttaagttttgcttgctattgatt-tgagctgtatttttacctctt-ttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGTGCAGTCACTAAGCCTCCTAATTTATCAATTGTCACGGAATATTTGTCAA
       || ||| | ||  ||  ||    | |  | | | |   ||||    |    || || |    ||| ||  |   |||||||      |||| ||  ||||||||||| |||| | | || || ||||| ||||||||| | ||||||||||| |||||| |||| |||||  | |||||||| || |||||  | ||||
----atacttaagatgttgcctcattgaa-gaactatatatatgcattgt-tgtagcattgtgatgttcatttatcatttactgtattgaggattcttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAA

upper sequence: GLYMA19G37570.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G03730.2 (Arabidopsis thaliana), 3'ss of exon 8
gtatgctctgaagttcttatcttgttttgtgcagaaaaaacaccaattgcactttaa-gttttgcttgct--attgatttgagctgtatttttacctcttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGTGCAGTCACTAAGCCTCCTAATTTATCAATTGTCACGGAATATTTGTCAA
                           ||  || | ||||       |  | |||     |   |||| |  ||| || |   |  |  | ||   ||  | |  ||||||| ||||||||| || | || || || ||||||||| |  | |||||||| |||||| | ||||| ||||| ||||| || || |||||||||||||
--------------------------gtgcacaaataaaattttctcttgattttggtaatgaacttgttgtattaatgtctccaatgatcttgattcgct-gtcagGTTGCGATAATGAAACGCCTTCGCCACCCTAACATTGTTCTCTTCATGGGTGCGGTCACTCAACCTCCAAATTTGTCAATAGTGACAGAATATTTGTCAA
















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|193654480|gb|FK600590.1|FK600590
EST:     GATGGAACAAGACTTCAAAGGTGAACGCTTCAAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: GATGGAACAAGACTTCAAAGGTGAACGCTTC-AAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|298178752|gb|HO024487.1|HO024487
EST:     GGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: GGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208211092|gb|GE012153.1|GE012153
EST:     CAAAGGTGAACGCCTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: CAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|193385242|gb|FK352704.1|FK352704
EST:     TGATGGAACAAGACTTC-AAGGTGAACGCTTCAAGGAATTCTTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208307044|gb|GE101556.1|GE101556
EST:     AAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: AAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208176074|gb|GD974305.1|GD974305
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208258098|gb|GE054559.1|GE054559
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGG
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATG-AAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGG
EST: gi|193369249|gb|FK337113.1|FK337113
EST:     AATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: AATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|193314122|gb|FK282527.1|FK282527
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208030492|gb|GD828404.1|GD828404
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208273291|gb|GE070577.1|GE070577
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|193398396|gb|FK362064.1|FK362064
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTTCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTCTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|193402418|gb|FK369778.1|FK369778
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208324413|gb|GE125714.1|GE125714
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|207701641|gb|GD681864.1|GD681864
EST:     AACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: AACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatgctctg ... cttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactttaagttttgcttgctattgatttgagctgtatttttacctcttttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGTGCAGTCACTAAGCCTCCTAATTTATCAATTGTCACGGAATATTTGTCAA
                   tattgat  putative branch site (score: 3)
                                    tttttacctcttttgc  putative PPT
                                tgtattttta  TA-rich tract