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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaggatatgtttgtaatttgatcattgaaacaactttggttgttactgaatggctttatacgttgtttcagGCATGGAGGTTGCCTAGTCAAGGAAGAAACAATGTTGCAAATCGTTACAATCGTGAAGGTATCTATGTTACTCATCCTTCTAGGGCATTCCACGATGAGG

Basic information

species Glycine max
transcript GLYMA01G27250.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G27250.2 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os03g61050.1 (Oryza sativa), 3'ss of exon 11
----------------------gcaggatatgtttgtaatttgatcattgaaacaactttggttgttactgaatggctttatacgtt---gttt-----cagGCATGGAGGTTGCCTAGTCAAGGAAGAAACAATGTTGCAAATCGTTACAATCGTGAAGGTATCTATGTTACTCATCCTTCTAGGGCATTCCACGATGAGG
                       || |  ||||||  ||   |||  | |||  |    ||   ||     ||     | || | ||    |||      ||| |||||| |   | |  || ||||||||||||| |||| |||||||||| ||||||||||| |||||||  ||   ||| ||  ||||||  || || |
ttcctttaaaccttctatttattcatgg-atgttta-aacaagatagtggaagtactgctgacagtaggataacaatataattccttccaatttaatggtagGAATGGAGATCATCAAACCAGGGAAGAAACAATGCTGCATATCGTTACAACCGTGAAGGTATTTATGTTAAACACGGTTCCAGAACATTCCGTGACGAAG
















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|254347805|gb|GR854054.1|GR854054
EST:     ATGGCAATGTCTTCTGCTTCTCAACCCCGTCTCCTCATCATCCCCTAAAG                         GCATGGAGGTTGCCTAGTCAAGGAAGAAACAATGTTGCAAATCGTTACAAT
genomic: ATGGCAATGTCTTCTGCTTCTCAACCCCGTCTCCTCATCATCCCCTAAAGgcaggatatg ... gttgtttcagGCATGGAGGTTGCCTAGTCAAGGAAGAAACAATGTTGCAAATCGTTACAAT
EST: gi|58021548|gb|CX708289.1|CX708289
EST:     TCCTCATCATCCCCTAAAG                         GCATGGAGGTTGCCTAGTCAAGGAAGAAACAATGTTGCAAATCGTTACAAT
genomic: TCCTCATCATCCCCTAAAGgcaggatatg ... gttgtttcagGCATGGAGGTTGCCTAGTCAAGGAAGAAACAATGTTGCAAATCGTTACAAT
EST: gi|151401114|gb|EV270928.1|EV270928
EST:     ATGGCAATGTCTTCTGCTTCTCAACCCCGTCTCCTCATCATCCCCTAAAG                         GCATGGAGGTTGCCTAGTCAAGGAAGAAACAATGTTGCAAATCGTTACAAT
genomic: ATGGCAATGTCTTCTGCTTCTCAACCCCGTCTCCTCATCATCCCCTAAAGgcaggatatg ... gttgtttcagGCATGGAGGTTGCCTAGTCAAGGAAGAAACAATGTTGCAAATCGTTACAAT
EST: gi|193594003|gb|FK546245.1|FK546245
EST:     ATGGCAATGTCTTCTGCTTCTCAACCCCGTCTCCTCATCATCCCCTAAAG                         GCATGGAGGTTGCCTAGTCAAGGAAGAAACAATGTTGCAAATCGTTACAAT
genomic: ATGGCAATGTCTTCTGCTTCTCAACCCCGTCTCCTCATCATCCCCTAAAGgcaggatatg ... gttgtttcagGCATGGAGGTTGCCTAGTCAAGGAAGAAACAATGTTGCAAATCGTTACAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgatcattgaaacaactttggttgttactgaatggctttatacgttgtttcagGCATGGAGGTTGCCTAGTCAAGGAAGAAACAATGTTGCAAATCGTTACAATCGTGAAGGTATCTATGTTACTCATCCTTCTAGGGCATTCCACGATGAGG
 atttgat  putative branch site (score: 5)
                                              ttgtttc  putative PPT
                                      tttata  TA-rich tract