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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATCATTTTTTTGATGTCATCACAAATATGATTGGTCTTGTTGCTGCACTACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtaccaaaaagttttctcctgttccattgcagtagtgtaaaactagagttcaagtaaatgctatatttgatctaatcgttaatttggagctaggca...

Basic information

species Oryza sativa
transcript LOC_Os01g62070.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g62070.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G014454_T01 (Zea mays), 5'ss of exon 5
GGATCATTTTTTTGATGTCATCACAAATATGATTGGTCTTGTTGCTGCACTACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtac-caaaaagttttctcctgttccattgcagtagtgtaaaactagagttcaagtaaatgctatatttgatctaatcgttaatttggagctaggca--------
 ||||| ||||| ||||||||||||||| | ||||| || |||||||||||||| || | ||| || || || |||||||| ||  ||||||||||| | ||||||||   | ||| |   ||      |  | |  ||         |||  |   | || || |  |  |  |  || |  ||| |||||      | |        
AGATCACTTTTTCGATGTCATCACAAATGTAATTGGCCTGGTTGCTGCACTACTTGCCAATTACATTGAGGGCTGGATCGATCCGCTTGGTGCAATCGTTgtaagtacatgagaagctcgatctcacatctatcccata---------tagcatcttaatatattcctttctatacgtattaattagtttgggaaagagtagttggcat

upper sequence: LOC_Os01g62070.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA18G52280.1 (Glycine max), 5'ss of exon 5
GGATCATTTTTTTGATGTCATCACAAATATGATTGGTCTTGTTGCTGCACTACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtaccaaaaagttttctcctgttccattgcagtagtgtaaaactagagttcaagtaaatgctatatttgatctaatcgtta-----atttggagctaggca
|||||| ||||||||||| ||||| ||||| ||||| ||| ||||||||||  | || | |||| | || | |||||| ||||| |||||||| ||||| ||||||    || | ||| ||  ||||  |       | |       || |   | || ||| |  |||| || ||  || |  |     |  |  |   |||| 
GGATCACTTTTTTGATGTGATCACTAATATCATTGGCCTTATTGCTGCACTTTTGGCAAATTATGTTGATGATTGGATGGACCCTGTTGGTGCTATCATTgtaagt---gaatactttccttttgttaaaggttttgatttgctgtttatatccctaggaaaggagatatatg-tcagattgggagagatacctataataaggc-
















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|29661349|gb|CB657624.1|CB657624
EST:     TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATC                         CTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
genomic: TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtacca ... tcgtttgcagCTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
EST: gi|33364700|gb|BP433013.1|BP433013
EST:     TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATC                         CTAGCAATRTACACGATCAGAACATGGTCGAATGACGGTGCTCGAYAAACG
genomic: TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtacca ... tcgtttgcagCTAGCAATCTACACGATCAGAACATGGTCG-ATGACGGTGCTCGA-GAACG
EST: gi|38470206|gb|CF954337.1|CF954337
EST:     TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATC                         CTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
genomic: TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtacca ... tcgtttgcagCTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
EST: gi|29620907|gb|CB625918.1|CB625918
EST:     TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATC                         CTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
genomic: TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtacca ... tcgtttgcagCTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
EST: gi|29639091|gb|CB644100.1|CB644100
EST:     TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATC                         CTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
genomic: TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtacca ... tcgtttgcagCTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
EST: gi|29657119|gb|CB653394.1|CB653394
EST:     TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATC                         CTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
genomic: TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtacca ... tcgtttgcagCTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
EST: gi|29661350|gb|CB657625.1|CB657625
EST:     TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATC                         CTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
genomic: TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtacca ... tcgtttgcagCTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
EST: gi|88380767|gb|CI634792.1|CI634792
EST:     TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATC                         CTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
genomic: TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtacca ... tcgtttgcagCTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
EST: gi|29675077|gb|CB671352.1|CB671352
EST:     TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATC                         ATAGCAATATACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
genomic: TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtacca ... tcgtttgcagCTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
EST: gi|29663340|gb|CB659615.1|CB659615
EST:     TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATC                         CTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
genomic: TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtacca ... tcgtttgcagCTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
EST: gi|29688324|gb|CB684599.1|CB684599
EST:     TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATC                         CTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC
genomic: TACTAGCGACTTATATCGAAGGTTGGATCGACCCAGTTGGTGCAATCATCgtaagtacca ... tcgtttgcagCTAGCAATCTACACGATCAGAACATGGTCGATGACGGTGCTCGAGAACGTC