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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatactctgaagttcttatcttgttttgtgcagcaaaaacaccaattgcactttaagttttgcttgctattgatttgagctgtatttttacctctttcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGTGCAGTCACTAAGCCTCCTAATCTATCAATTGTCACAGAATATTTGTCAA

Basic information

species Glycine max
transcript GLYMA03G34890.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G34890.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os09g39320.1 (Oryza sativa), 3'ss of exon 9
gtatactctgaagttcttatcttgttttgtgca-gcaaaaacaccaattgcactttaagttttgcttgctattgatttgagctgtatttttacctctttcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGTGCAGTCACTAAGCCTCCTAATCTATCAATTGTCACAGAATATTTGTCAA
   ||||    |     | |  ||   ||  |  |   |  ||   || |  | |       | |||  || | |  | |  ||  ||| | |   ||    |||||||||||||||||| || |  | |||||||| |||||| |  | |||||||| || ||| ||||||| || |||||||| || |||||||| |||||||
-gctactagccacaatgtgttgtgccctggccgtgtttatgcatttatagagcatcc--ccatccttagtactcacctta--tgagtttcttctcattgttatagGTTGCAATAATGAAAAGCCTGAGACATCCAAATATTGTTCTTTTCATGGGTGCTGTTACTGAGCCTCCCAACCTATCAATAGTTACAGAATACTTGTCAA

upper sequence: GLYMA03G34890.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G059671_T01 (Zea mays), 3'ss of exon 7
gtatactctgaagttcttatcttgttttgtgcagcaaaaacaccaattgcactttaagttttgcttgctattgatt-tgagctgtatttttacctctt-tcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGTGCAGTCACTAAGCCTCCTAATCTATCAATTGTCACAGAATATTTGTCAA
    |  || ||| | ||  ||  ||    | |  | | | |   ||||    |    || || |    ||| ||  |   |||||||      |||| |   ||||||||||| |||| | | || || ||||| ||||||||| | ||||||||||| |||||| |||| ||||| || |||||||| || |||||  | ||||
----atacttaagatgttgcctcattgaa-gaactatatatatgcattgt-tgtagcattgtgatgttcatttatcatttactgtattgaggattcttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAA

upper sequence: GLYMA03G34890.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G03730.2 (Arabidopsis thaliana), 3'ss of exon 8
gtatactctgaagttcttatcttgttttgtgcagcaaaaacaccaattgcactttaagttttgcttgctattgatttgagctgtatttttacctctttcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGTGCAGTCACTAAGCCTCCTAATCTATCAATTGTCACAGAATATTTGTCAA
||  ||    ||  | || ||||| |||  | |   ||    |   ||| | || | || |    || | ||||||   |||||                  ||||||| ||||||||| || | || || || ||||||||| |  | |||||||| |||||| | ||||| ||| | ||||| || ||||||||||||||||
gtgcacaaataaaattttctcttgattttggtaatgaa----cttgttgta-ttaatgtctccaatgatcttgattc--gctgt-----------------cagGTTGCGATAATGAAACGCCTTCGCCACCCTAACATTGTTCTCTTCATGGGTGCGGTCACTCAACCTCCAAATTTGTCAATAGTGACAGAATATTTGTCAA

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|193477646|gb|FK442277.1|FK442277
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatactctg ... ctttcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|207782482|gb|GD754935.1|GD754935
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatactctg ... ctttcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|193419164|gb|FK381848.1|FK381848
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatactctg ... ctttcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|33387541|gb|CA850748.1|CA850748
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatactctg ... ctttcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|193424026|gb|FK386781.1|FK386781
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatactctg ... ctttcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208154550|gb|GD956695.1|GD956695
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatactctg ... ctttcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208086610|gb|GD884194.1|GD884194
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatactctg ... ctttcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|208213300|gb|GE012737.1|GE012737
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatactctg ... ctttcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
EST: gi|254324292|gb|GR840609.1|GR840609
EST:     TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAG                         GTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT
genomic: TGATGGAACAAGACTTCAAAGGTGAACGCTTCAAGGAATTCCTGAGGGAGgtatactctg ... ctttcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactttaagttttgcttgctattgatttgagctgtatttttacctctttcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGTGCAGTCACTAAGCCTCCTAATCTATCAATTGTCACAGAATATTTGTCAA
                   tattgat  putative branch site (score: 3)
                                    tttttacctctttcac  putative PPT
                                tgtattttta  TA-rich tract