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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGAAGGCATGCTTGCTGGTGAAATGAAGCATGGACCACTTGCACTAGTGGATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagcgctttggacagactgcagagcacgttcattttcttttcatttttcaaggagttcctctaaacatcttcacctcttgcag

Basic information

species Oryza sativa
transcript LOC_Os12g03720.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g03720.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G005849_T01 (Zea mays), 5'ss of exon 9
GCGAAGGCATGCTTGCTGGTGAAATGAAGCATGGACCACTTGCACTAGTGGATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagcgctttggacagactgcagagcacgttcattttcttttcatttttcaaggagttcctctaaacatcttcacctcttgcag
|||| |||||||| ||||| || |||||||| || || || || || ||||| || ||||| || ||||| |||||||| || || || |||||||||||||||      |  | |  |    |  ||  ||   || |  ||  |  |   ||||   |  |      ||   |||||||||||
GCGAGGGCATGCTCGCTGGCGAGATGAAGCACGGGCCGCTGGCCCTCGTGGACGAGAACCTCCCCATCATTGTCATTGCGACCCGCGACGCGTGCTTCAGgtaa---tgataaagaagcatgggcccagctttggttaccctttttggtagcaggaaaccaacctcttttcaaaacctcttgcag

upper sequence: LOC_Os12g03720.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA09G38460.1 (Glycine max), 5'ss of exon 9
GCGAAGGCATGCTTGCTGGTGAAATGAAGCATGGACCACTTGCACTAGTGGATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagcgctttggacagactgcagagcacgttcattttcttttcatttttcaaggagttcctctaaacat-cttcacctcttgcag
| ||||| |||||||||||||||||||||||||| ||  | ||| ||||||||||||| || || ||    ||  | ||||| |||||||| ||||||||||  |   |       |||||  ||| |  || ||| |||         | | |   ||  | |  ||||  || | || |  |||
GTGAAGGGATGCTTGCTGGTGAAATGAAGCATGGTCCTTTGGCATTAGTGGATGAAAATCTCCCAATTGCTGTTGTAGCTACCCGTGATGCCTGCTTCAGgttggttgt-------gactgtcgagtagctttattatctgaaa-----ttaggagtttgatattgacatattttatctttgacag

upper sequence: LOC_Os12g03720.1 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv13s0064g00050.t01 (Vitis vinifera), 5'ss of exon 9
GCGAAGGCATGCTTGCTGGTGAAATGAAGCATGGACCACTTGCACTAGTGGATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagc-gctttggacag----actgcagagcacgttcattttcttttcatttttcaaggagttcctctaaacatcttc-acctcttgcag
| ||||| ||  |||| ||||||||||| ||||| ||  | || ||||| |||||||| ||||| ||  | || |||||||| |||||||| |||||||||| ||    |||  |       | || |   |    | | ||  ||  |||| |||  |   ||  | |  |||| ||| |   ||  |||
GTGAAGGAATAATTGCAGGTGAAATGAAACATGGTCCTTTGGCTCTAGTTGATGAAAATCTTCCAATTGTTGTTATTGCTACCCGTGATGCTTGCTTCAGgttagttattttttatttttttattgaaagacttaataagttgtttgacattcttcttgc--tttgtattgacattttctaatgctgacag

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|86426649|gb|CI071746.1|CI071746
EST:     GATGAAAACCTTCCGATGATCGTCATTGCTACACGTGATGCGTGCCTCAG                         CAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
genomic: GATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagcgctt ... cctcttgcagCAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
EST: gi|88902738|gb|CI088276.1|CI088276
EST:     TACACGTGATGCGTGCTTCAG                         CAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
genomic: TACACGTGATGCGTGCTTCAGgtaagcgctt ... cctcttgcagCAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
EST: gi|58600045|gb|CK010573.1|CK010573
EST:     GATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAG                         CAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
genomic: GATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagcgctt ... cctcttgcagCAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
EST: gi|86479812|gb|CI122445.1|CI122445
EST:     GATGAAAACCTTCGGATCATCGTCATTGCTACACGTGATGCGTGCTTCAG                         CAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
genomic: GATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagcgctt ... cctcttgcagCAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
EST: gi|89184705|gb|CI007130.1|CI007130
EST:     GATG-AAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAG                         CAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
genomic: GATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagcgctt ... cctcttgcagCAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
EST: gi|87026077|gb|CI250093.1|CI250093
EST:     GATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAG                         CAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
genomic: GATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagcgctt ... cctcttgcagCAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
EST: gi|86834864|gb|CI345948.1|CI345948
EST:     ACGTGATGCGTGCTTCAG                         CAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
genomic: ACGTGATGCGTGCTTCAGgtaagcgctt ... cctcttgcagCAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
EST: gi|88837681|gb|CI079041.1|CI079041
EST:     GCTACACGTGATGCGTGCTTCAG                         CAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
genomic: GCTACACGTGATGCGTGCTTCAGgtaagcgctt ... cctcttgcagCAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
EST: gi|3766919|gb|AU031029.1|AU031029
EST:     GATGAAAA-CTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAG                         CAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
genomic: GATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagcgctt ... cctcttgcagCAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
EST: gi|86496093|gb|CI138726.1|CI138726
EST:     GATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAG                         CAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
genomic: GATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagcgctt ... cctcttgcagCAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
EST: gi|86481498|gb|CI124131.1|CI124131
EST:     GATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAG                         CAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
genomic: GATGAAAACCTTCCGATCATCGTCATTGCTACACGTGATGCGTGCTTCAGgtaagcgctt ... cctcttgcagCAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
EST: gi|88902955|gb|CI088493.1|CI088493
EST:     CTACACGTGATGCGTGCTTCAG                         CAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT
genomic: CTACACGTGATGCGTGCTTCAGgtaagcgctt ... cctcttgcagCAAGCAACAGTCAGTGATTCAGCAGCTCCTTTCTCGCAAGGGGCGTCTGAT