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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTCGCATTTGCAAAACATTTGATTCATCTGCATGCATATCAGCAACCAAATGAGACGCGGCAAGTTCTAGAGgtactgcaatacttccaactgtccttaatcatatggttatagaccaaatgtcagttttataaatatcacaatactttattagttcaagtctgtcactaaacccttttattcatcatgtcag

Basic information

species Oryza sativa
transcript LOC_Os01g15020.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g15020.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G416836_T01 (Zea mays), 5'ss of exon 10
GTGTCGCATTTGCAAAACATTTGATTCATCTGCATGCATATCAGCAACCAAATGAGACGCGGCAAGTTCTAGAGgtactgcaatacttccaactgtccttaatcatatggttatagaccaaatgtcagttttataaatatcacaatactttattagttcaagtctgtcactaaacccttttattcatcatgtcag
| || |||||  ||||| ||||||| | | |  |||||||||| | |||||||||||| || || |||||||||||||  ||||            ||  || || |   |||||||  |          ||| ||||  || ||  |  ||| | || || | ||| | ||    |  || ||| |||||||||
GAGTTGCATTCACAAAATATTTGATCCGTGTATATGCATATCAACCACCAAATGAGACACGACATGTTCTAGAGgtaccacaat------------ccacaa-caaactcttatagataa----------ttaaaaatgacataac-ccatataacttaaactgtgttatta----ccatttttcttcatgtcag

upper sequence: LOC_Os01g15020.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G316967_T01 (Zea mays), 5'ss of exon 11
GTGTCGCATTTGCAAAACATTTGATTCATCTGCATGCATATCAGCAACCAAATGAGACGCGGCAAGTTCTAGAGgtactgcaatacttccaactgtccttaatcatatggttatagaccaaatgtcagttttataaatatcacaatactttattagttcaagtctgtcactaaacccttttattcatcatgtcag
| || |||||  | ||||||||||| |||||||||| ||| || | |||||||||||| || ||  ||||||||||||  ||| |     |||| |  |     | ||  ||| |  ||| ||  ||   ||  |  ||  |  ||  ||  | |  |||                                   
GCGTTGCATTCACGAAACATTTGATCCATCTGCATGGATACCAACCACCAAATGAGACACGACACCTTCTAGAGgtaccacaaca-----aacttttat-----agataattaaatgccatataacataatttgagttactatcatttttcttcatgtcag----------------------------------
















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|29628360|gb|CB633371.1|CB633371
EST:     TTCATCTGCATGCATATCAGCAACCAAATGAGACGCGGCAAGTTCTAGAG                         ATTGACGCTCATTCTGGAGCAGTTAATGACATAGCATTCTCCCGGCCAAAT
genomic: TTCATCTGCATGCATATCAGCAACCAAATGAGACGCGGCAAGTTCTAGAGgtactgcaat ... atcatgtcagATTGACGCTCATTCTGGAGCAGTTAATGACATAGCATTCTCCCGGCCAAAT
EST: gi|86888343|gb|CI303625.1|CI303625
EST:     TTCATCTGCATGCATATCAGCAACCAAATGAGACGCGGCAAGTTCTAGAG                         ATTGACGCTCATTCTGGAGCAGTTAATGACATAGCATTCTCCCGGCCAAAT
genomic: TTCATCTGCATGCATATCAGCAACCAAATGAGACGCGGCAAGTTCTAGAGgtactgcaat ... atcatgtcagATTGACGCTCATTCTGGAGCAGTTAATGACATAGCATTCTCCCGGCCAAAT
EST: gi|29630452|gb|CB635461.1|CB635461
EST:     CCAAATGAGACGCGGCCATTTCAAGAG                         ATTGACGCTCATTCTGGAGCAGTTAATGACATAGCATTCTCCCGGCCAAAT
genomic: CCAAATGAGACGCGGCAAGTTCTAGAGgtactgcaat ... atcatgtcagATTGACGCTCATTCTGGAGCAGTTAATGACATAGCATTCTCCCGGCCAAAT
EST: gi|29628115|gb|CB633126.1|CB633126
EST:     TTCATCTGCATGCATATCAGCAACCAAATGAGACGCGGCAAGTTCTAGAG                         ATTGACGCTCATTCTGGAGCAGTTAATGACATAGCATTCTCCCGGCCAAAT
genomic: TTCATCTGCATGCATATCAGCAACCAAATGAGACGCGGCAAGTTCTAGAGgtactgcaat ... atcatgtcagATTGACGCTCATTCTGGAGCAGTTAATGACATAGCATTCTCCCGGCCAAAT
EST: gi|29643744|gb|CB648751.1|CB648751
EST:     TTCATCTGCATGCATATCAGCAACCAAATGAGACGCGGCAAGTTCTAAAG                         ATTGACGCTCATTCT
genomic: TTCATCTGCATGCATATCAGCAACCAAATGAGACGCGGCAAGTTCTAGAGgtactgcaat ... atcatgtcagATTGACGCTCATTCT
EST: gi|58659276|gb|CK047956.1|CK047956
EST:     TTCATCTGCATGCATATCAGCAACCAAATGAGACGCGGCAAGTTCTAGAG                         ATTGACGCTCATTCTGGAGCAG
genomic: TTCATCTGCATGCATATCAGCAACCAAATGAGACGCGGCAAGTTCTAGAGgtactgcaat ... atcatgtcagATTGACGCTCATTCTGGAGCAG