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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaactctacatacattaagagatactgcggacattctttttaggttgatgaataaaatctgagattatttcatgttgtaaaaatattgtttccagGTAAAATGGTTCTTTTGGATAAGTTACTTCCTAAATTGAAAGAGCGCGATTCTAGGGTCCTTATATTTTCACAG

Basic information

species Glycine max
transcript GLYMA15G10370.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 9
gtaaactctacatacattaagagatactgcg---gacattc--tttttaggttgatgaataaaatctgagattatttcatgttgtaaaaatattgtttccagGTAAAATGGTTCTTTTGGATAAGTTACTTCCTAAATTGAAAGAGCGCGATTCTAGGGTCCTTATATTTTCACAG
|||| |||| | | |  ||| | ||| || |     ||||   ||||  |||| || ||  |      |   ||| || | |||||   |||| |    ||||||| |||||||||||||||||| ||||||| ||  | |||||||| ||||||||||| || ||||||||||||
gtaagctctgccttctctaa-atatattgagttaagcattgggttttatggttaatcaaagacgatcaaccctatctc-ttttgtacttatatgg----cagGTAAGATGGTTCTTTTGGATAAGCTACTTCCAAAGCTAAAAGAGCGTGATTCTAGGGTTCTAATATTTTCACAG
















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|5753528|gb|AI960815.1|AI960815
EST:     TGAACCTGGTCCTCCCTTCACTACAGGAGATCATCTTATTGAAAACGCTG                         GTAAAATGGTTCTTTTGGATAAGTTACTTCCTAAATTGAAAGAGCGCGATT
genomic: TGAACCTGGTCCTCCCTTCACTACAGGAGATCATCTTATTGAAAACGCTGgtaaactcta ... ttgtttccagGTAAAATGGTTCTTTTGGATAAGTTACTTCCTAAATTGAAAGAGCGCGATT
EST: gi|208242906|gb|GE041540.1|GE041540
EST:     TGAACCTGGTCCTCCCTTCACTACAGGAGATCATCTTATTGAAAACGCTG                         GTAAAATGGTTCTTTTGTATAAGTTACTTCCTAAATTGAAAGAGCGCGATT
genomic: TGAACCTGGTCCTCCCTTCACTACAGGAGATCATCTTATTGAAAACGCTGgtaaactcta ... ttgtttccagGTAAAATGGTTCTTTTGGATAAGTTACTTCCTAAATTGAAAGAGCGCGATT
EST: gi|6069767|gb|AW099383.1|AW099383
EST:     TGAACCTGGTCCTCCCTTCACTACAGGAGATCATCTTATTGAAAACGCTG                         GTAAAATGGTTCTTTTGGATAAGTTACTTCCTAAATTGAAAGAGCGCGATT
genomic: TGAACCTGGTCCTCCCTTCACTACAGGAGATCATCTTATTGAAAACGCTGgtaaactcta ... ttgtttccagGTAAAATGGTTCTTTTGGATAAGTTACTTCCTAAATTGAAAGAGCGCGATT
EST: gi|193407727|gb|FK373103.1|FK373103
EST:     TGAACCTGGTCCTCCCTTCACTACAGGAGATCATCTTATTGAAAACGCTG                         GTAAAATGGTTCTTTTGGATAAGTTACTTCCTAAATTGAAAGAGCGCGATT
genomic: TGAACCTGGTCCTCCCTTCACTACAGGAGATCATCTTATTGAAAACGCTGgtaaactcta ... ttgtttccagGTAAAATGGTTCTTTTGGATAAGTTACTTCCTAAATTGAAAGAGCGCGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggttgatgaataaaatctgagattatttcatgttgtaaaaatattgtttccagGTAAAATGGTTCTTTTGGATAAGTTACTTCCTAAATTGAAAGAGCGCGATTCTAGGGTCCTTATATTTTCACAG
  ggttgat  putative branch site (score: 5)
                                             ttgtttcc  putative PPT
                       attatttcatgttgta  TA-rich tract