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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCATCTAATGGGAACGGTCCTTCAGAATTAGCGGATGATGACTTGCCAAGTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgtagaacactgcaaagcattgttggtaatatgatcatgcatgtcaaagtgtcttttggtgttgaactgttgatatttgatttccattttaaaacag

Basic information

species Glycine max
transcript GLYMA11G11490.1
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G11490.1 (Glycine max), 5'ss of exon 16
lower sequence: AT4G38600.2 (Arabidopsis thaliana), 5'ss of exon 16
TTCATCTAATGGGAACGGTCCTTCAGAATTAGCGGATGATGACTTGCCAAGTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgtagaacactgcaaagcattgttggtaatatgatcatgcatgtcaaagtgtcttttggtgttgaactgttgatatttgatttccattttaaaacag
  || | || ||    ||  |||| ||   ||| |||||||| ||||| ||||| ||||| || ||||| |||||||| || |||||||||||||| |||||    || ||      ||| ||  | |        | ||||| |  |||  | |||||   || |    |   ||  || |   | || ||||||
AGCAGCCAACGGAGCAGGGGCTTCGGAGACAGCAGATGATGATTTGCCCAGTGTCATGACTTGCGCAAACTACCTTAAACTCCCTCCTTATTCTACAAAGgtgagtca-tgtcttctattcttcttga-------gtccatgttagtgtggttgttggt---gagcctgaggagttgtatgt---tattgaaacag

upper sequence: GLYMA11G11490.1 (Glycine max), 5'ss of exon 16
lower sequence: Vv03s0038g02340.t01 (Vitis vinifera), 5'ss of exon 16
TTCATCTAATGGGAAC---GGTCCTTCAGAATTAGCGGATGATGACTTGCCAAGTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgtagaacactgcaaagcattgttggtaatatgatcatgcatgtcaaagtgtcttttggtgttgaactgttgatatttgatttccattttaaaacag
   | | ||||| |     || || || |||| |||||||||||||||||| ||||| ||||| ||||| |||||||| ||||||||||| || ||||||||||||    | |     | |||||    || |||  || | |  |||  |  | | |||   || |||  | |   |    |  |||           
---AGCCAATGGTAGTTCTGGCCCATCGGAATCAGCGGATGATGACTTGCCCAGTGTCATGACATGTGCTAATTACCTCAAGCTTCCTCCGTACTCTACCAAGgtatggtatttttgtgaattgt---gaagatgtccaggaac-tcatgg-atttgttgtcatt-aaccatcgccttcctttaaccag----------

upper sequence: GLYMA11G11490.1 (Glycine max), 5'ss of exon 16
lower sequence: Vv04s0023g03830.t01 (Vitis vinifera), 5'ss of exon 16
TTCATCTAATGGGAACGGTCCTTCAGAATTAGCGGATGATGACTTGCCAAGTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgtagaacactgcaaagcattgttggtaatatgatcatgcatgtca-------aagtgtcttttggtgt-tgaactgttgatatttgattt--ccattttaaaacag
  || | ||   ||  || ||||| |||| ||| || || || ||||| ||||| ||||| ||||| |||||||| ||||||||||| ||||| ||||||||| || | |  ||   || || | ||   |||  ||  |  |||       || ||  |  |      ||  || || | ||||   ||  || |||     |||
GGCAACCAACATGATTGGACCTTCTGAATCAGCCGACGAGGATTTGCCCAGTGTTATGACTTGTGCCAATTACCTCAAGCTTCCTCCCTATTCCACCAAGgtaaaaaaat-taatatatggtagatatgttgaaaataaaaatcagatacctaactgcatgctcacacatgctctatttaaatttacctttcccctttcctttcag

upper sequence: GLYMA11G11490.1 (Glycine max), 5'ss of exon 16
lower sequence: PP1S263_1V6.1 (Physcomitrella patens), 5'ss of exon 9
--TTCATCTAATGGGAACGGTCCTTCAGAATTAGCGGATGATGACTTGCCAAGTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgt-agaacact----------------gcaaagcattgttggtaatatgatcatgcatgt---caaagtgtcttttggtgttgaactgttgatatttgatttccattttaaaacag------------------------------------------
        ||   ||   ||     |    || |||||  | ||| |||| ||||||||||| |||||||| ||||| ||||||||||| || ||   |||||| || |   |                ||   |     ||| |     |  || || |||   | |  |   | | ||||  ||    | ||| |     |  | | ||   |  |                                          
GGGAGCCTTAGCAGGGTTGGGGA--CCACGTTGGCGGACAAAGACCTGCCCAGTGTGATGACATGTGCAAACTACCTGAAGCTTCCTCCGTACTCGTGCAAGgttaggatgttcgtggtggaagttggtgcggggttgcattgtttgggggtgcacgcgtgtagcctagttagttatgggtggagatgaatcgatttagttgtgacgtgttggcatggtgagtaaagttggtactgaatgggtgtgggtgatgttcacag

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|22933713|gb|BU550852.1|BU550852
EST:     GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAG                         GAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCAGGGATCC
genomic: GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgtagaacact ... tttaaaacagGAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCAGGGATCC
EST: gi|208150514|gb|GD947437.1|GD947437
EST:     GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAG                         GAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCAGGGATCC
genomic: GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgtagaacact ... tttaaaacagGAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCAGGGATCC
EST: gi|17400311|gb|BM177093.1|BM177093
EST:     GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAG                         GAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCAGGGATCC
genomic: GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgtagaacact ... tttaaaacagGAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCAGGGATCC
EST: gi|11275017|gb|BF325341.1|BF325341
EST:     GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTGTACCAAT                         GAAATTATGTACCAGAAGCTACTCTATGCAATGAGAGTAAG-CCAGTGATC
genomic: GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgtagaacact ... tttaaaacagGAAATTATGTACAAGAAGCTACTCTATGCAATCAGTG-AAGGCCAGGGATC
EST: gi|15814707|gb|BI786982.1|BI786982
EST:     GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAG                         GAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCAGGGATCC
genomic: GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgtagaacact ... tttaaaacagGAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCAGGGATCC
EST: gi|23732846|gb|BU764597.1|BU764597
EST:     GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAG                         GAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCAGGGATCC
genomic: GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgtagaacact ... tttaaaacagGAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCAGGGATCC
EST: gi|11274082|gb|BF324450.1|BF324450
EST:     GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAG                         GAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCCAGG-ATC
genomic: GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgtagaacact ... tttaaaacagGAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCC-AGGGATC
EST: gi|10843371|gb|BF066672.1|BF066672
EST:     GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAG                         GAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCAGGGATCC
genomic: GTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgtagaacact ... tttaaaacagGAAATTATGTACAAGAAGCTACTCTATGCAATCAGTGAAGGCCAGGGATCC