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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTTGAGCTACCTCCTGCAGAAATTCCTCAACCCTAGCTTCACCTCCTTGCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagcctcaagtctcatatgcttacatccttaattctcttcttctctctagagtctagactagatagctgtagagatgtagatgcacaattgcttggctcttgatgttaatttgtttgttcatgtatgaatctgattattgatacaaattaatttgaattgaag

Basic information

species Oryza sativa
transcript LOC_Os11g03370.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g03370.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G018436_T01 (Zea mays), 5'ss of exon 1
ATCTTGAGCTACCTCCTGCAGAAATTCCTCAACCCTAGCTTCACCTCCTTGCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagcctcaagtctcatatgcttacatccttaattctcttcttctctctagagtctagactagatagctgtagagatgtagatgcacaattgcttggctcttgatgttaatttgtttgttcatgtatgaatctgattattgatacaaattaatttgaattgaag
|||   |||||||||||||| || ||||| |||||||||||| |  |     | ||||| ||||| |||||||||||||||||||||||||||||||||||||||       | |||| | |  ||| |  | ||| ||||| | ||| |    | | ||| |||  || |        ||| |  ||       ||    || ||| | | |   |                                                
ATCACCAGCTACCTCCTGCACAAGTTCCTGAACCCTAGCTTCGCGCCGCACGCCATCGGGGAGGTGGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagt------tgtcat-tacacacagc--tgattttcttcctttcttttc--ttttgacaagaaggccggtagctactagctagacgtacatgtgtaaattaatgcttaatcactaag---------------------------------------------

upper sequence: LOC_Os11g03370.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S279_85V6.1 (Physcomitrella patens), 5'ss of exon 1
ATCTTGAGCTACCTCCTG---CAGAAATTCCTCAACCCTAGCTTCACCTCCTTGCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagcctcaagtctcatatgcttacatccttaattctcttcttctctctagagtctagactagata-gctgtagagatgtagatgcacaatt----gcttggctcttgatgttaatttgtttgttcatgtatgaatctgattattgatacaaattaatttgaattgaag
    |||||| |  ||||   | |||  |   |||||||    ||        | | ||     | || |||||||||||||||||||| |||||||| ||| |||    |    | ||  ||  |  | | |  ||   |     |    |||     |    ||     |  ||||  |    ||| |  ||||    |   |  ||      |  |     |  || || | ||      |    || | |   |  ||     ||| ||
---GTGAGCTTCTACCTGGTCCGGAAGATTAGCAACCCTCAAGTCGTTGTGAAGACGATTCCAAACGTGGACCTCAACAAGTGCGAGCCTTGGGATCTTCCAGgtatttttttcttttcgcattat--ccttcagaacatttggtgtagacctaacaattgtgttattcgtgtagtaggaaacctgatacgaaatttagtgtaagattcgcatgatctacagaatgctttatttgtgggataaa--gctgctccgtctcgatg-attttgcag

upper sequence: LOC_Os11g03370.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ11746 (Selaginella moellendorffii), 5'ss of exon 1
ATCTTGAGCTACCTCCTGCAGAAATTCCTCAACCCTAGCTTCACCTCCTTGCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagcctcaagtctcatat----------gcttacatccttaattctcttcttctctctagag---tctagactagatagctgtagagatgtagatgcacaattgcttggctcttgatgttaatttgtttgttca---tgtatgaatctgattattgatacaaattaatttgaattgaag---------------
|||     ||||||| |  ||||  || ||||| | |  |||    |     | |||| ||||||||| |||||||||| ||||||||||||||| ||  |||||    || ||||  ||            |  | ||  | |||  ||    |||||| ||      | | || || |  ||  |   || |        ||| |  ||  ||||   |  ||   || | ||    ||  || |    |||  |   | ||  |    |   ||                   
ATCACCTTCTACCTCGTCAAGAAGGTCGTCAACACAAAATTCGTGGCGCACGCCATCGCCGAGGTCGATCTCAACAAGTTCGAGCCATGGGATCTACCCGgtaaggaggaactctctcatcttctctcgcattcgcttctatcatttcctctcactctctcgacgttcttgggcttga-atttgctgcattgcattcatggcattccaaggaacttggaatcgatcacttgggtcgagttgcctggacgaaattcctctaaaaatctctcctttgttcttttttctttcccggcag

upper sequence: LOC_Os11g03370.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ22540 (Selaginella moellendorffii), 5'ss of exon 1
ATCTTGAGCTACCTCCTGCAGAAATTCCTCAACCCTAGCTTCACCTCCTTGCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagcctcaagtctcatat----------gcttacatccttaattctcttcttctctctagag---tctagactagatagctgtagagatgtagatgcacaattgcttggctcttgatgttaatttgtttgttca---tgtatgaatctgattattgatacaaattaatttgaattgaag---------------
|||     ||||||| |  ||||  || ||||| | |  ||| |  |     | |||| ||||||||| |||||||||| ||||||||||||||| ||  |||||    || ||||  ||            |    ||  | |||  ||    |||||| ||      | | || || |  ||  |   || |        ||| |  ||  ||||   |  ||   || | ||    ||  || |    |||  |   | ||  |    |   ||                   
ATCACCTTCTACCTCGTCAAGAAGGTCGTCAACACAAAATTCGCGGCGCACGCCATCGCCGAGGTCGATCTCAACAAGTTCGAGCCATGGGATCTACCCGgtaaggaggaactctcccatcttctctcgcattcgtttctatgatttcctctcactctctcgacgttcttgggcttga-atttgctgcattgcattcatggcattccaaggaacttggaatcgatcacttgggtcgagttgcctggacgaaattcctctaaaaatctctcctttgttcttttttctttcccggcag

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|86904463|gb|CI308673.1|CI308673
EST:     GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAA                         GCAAGGCGAAGATAGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGACA
genomic: GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagcctca ... tgaattgaagGCAAGGCGAAGATGGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGACA
EST: gi|27410206|gb|CA923276.1|CA923276
EST:     GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAA                         GCAAGGCGAAGATGGGGGAGAAAGAATGGT
genomic: GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagcctca ... tgaattgaagGCAAGGCGAAGATGGGGGAGAAAGAATGGT
EST: gi|88426619|gb|CI579448.1|CI579448
EST:     GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAA                         GCAAGGCGAAGATGGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGA
genomic: GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagcctca ... tgaattgaagGCAAGGCGAAGATGGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGA
EST: gi|87009715|gb|CI310818.1|CI310818
EST:     GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAA                         GCAAGGCGAAGATAGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGACA
genomic: GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagcctca ... tgaattgaagGCAAGGCGAAGATGGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGACA
EST: gi|86877300|gb|CI311527.1|CI311527
EST:     GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAA                         GCAAGGCGAAGATCGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGAC
genomic: GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagcctca ... tgaattgaagGCAAGGCGAAGATGGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGAC
EST: gi|86884138|gb|CI311618.1|CI311618
EST:     GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAA                         GCAAGGCGAAGATNGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGACA
genomic: GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagcctca ... tgaattgaagGCAAGGCGAAGATGGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGACA
EST: gi|86884159|gb|CI311629.1|CI311629
EST:     GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAA                         GCAAGGCGAAGATNGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGACA
genomic: GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagcctca ... tgaattgaagGCAAGGCGAAGATGGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGACA
EST: gi|33685473|gb|CF313712.1|CF313712
EST:     GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAA                         GCAAGGCGAAGATGGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGACA
genomic: GCCAATCGGCGAGGTCGACCTCAACAAGTGCGAGCCATGGGATCTCCCAAgtaagcctca ... tgaattgaagGCAAGGCGAAGATGGGGGAGAAAGAATGGTACTTCTTCAGCCACAAGGACA