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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAGgtacctatttatttttttccttaatttttccttttttgttctgattaactatatagaaagaactgcaacacaactagttgcagagcagtattggaatgtt...

Basic information

species Oryza sativa
transcript LOC_Os03g49420.2
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g49420.2 (Oryza sativa), 5'ss of exon 18
lower sequence: GRMZM2G033619_T01 (Zea mays), 5'ss of exon 18
-----ATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAGgtacctat------ttatttttttccttaatttttccttttttgttctgattaact---atatagaaagaactgcaacacaactagttgcagagcag-tattggaatgtt-----------------------------------------------------------------------------------------
     | |||||||||||||||||||| || |||||||||||||||||||| ||| ||||||| ||||||||| |      || || ||||||| ||| ||   || ||| |  |      ||    | |   |||  ||     | |  | | |  |  |||  | ||| |  |||                                                                                         
GTCTGAGAGGGAGCTTTTGGGTCATAATAATCAGTATCTTCCAAAGATTGTGTCTGTTTTTGCAGAGgtacctttagccttttcttattttcctcaatcttgttttctttatattatcccccttctgtttcccaaggtctatggaata--tggataaactgcaactcttgaaccgtttaaaagaccatcatttggaggaaactgagctatccaagtgacaggagcattatttacttaacttgatctgccttttgtatggaatgcag

upper sequence: LOC_Os03g49420.2 (Oryza sativa), 5'ss of exon 18
lower sequence: GRMZM2G033619_T02 (Zea mays), 5'ss of exon 17
--------------------------------------ATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAGgtacctat------ttatttttttccttaatttttccttttttgttctgattaact---atatagaaagaactgcaacacaactagttgcagagcag-tattggaatgtt-----------------------------------------------------------------------------------------
                                      | |||||||||||||||||||| || |||||||||||||||||||| ||| ||||||| ||||||||| |      || || ||||||| ||| ||   || ||| |  |      ||    | |   |||  ||     | |  | | |  |  |||  | ||| |  |||                                                                                         
CTATTATTTTTTCGTGTAATCAACGTTCAACAGGTCTGAGAGGGAGCTTTTGGGTCATAATAATCAGTATCTTCCAAAGATTGTGTCTGTTTTTGCAGAGgtacctttagccttttcttattttcctcaatcttgttttctttatattatcccccttctgtttcccaaggtctatggaata--tggataaactgcaactcttgaaccgtttaaaagaccatcatttggaggaaactgagctatccaagtgacaggagcattatttacttaacttgatctgccttttgtatggaatgcag
















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|29681491|gb|CB677766.1|CB677766
EST:     TGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTTTATTTTTGCGGAG                         ATATTATGTGCGGGTAAGGATCTGGCAACAGAACAAACTTTTAGTAAGATG
genomic: TGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAGgtacctattt ... atggatgcagATATTATGTGCGGGTAAGGATCTGGCAACAGAACAAACTTTTAGTAAGATG
EST: gi|29679232|gb|CB675507.1|CB675507
EST:     TGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAG                         ATATTATGTGCGGGTAAGGATCTGGCAACAGAACAAACTTTTAGTAAGATG
genomic: TGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAGgtacctattt ... atggatgcagATATTATGTGCGGGTAAGGATCTGGCAACAGAACAAACTTTTAGTAAGATG
EST: gi|29629241|gb|CB634252.1|CB634252
EST:     TGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAG                         ATATTATGTGCGGGTAAGGATCTGGCAACAGAACAAACTTTTAGTAAGATG
genomic: TGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAGgtacctattt ... atggatgcagATATTATGTGCGGGTAAGGATCTGGCAACAGAACAAACTTTTAGTAAGATG
EST: gi|88849788|gb|CI001494.1|CI001494
EST:     TGGGTCATAACAACCAGTATCTTCCCAAGATTGTCTCTATTTTTGCGGAG                         ATATTATGTGCGGGTAAGGATCTGGCCACAGAACAAACTTTTAGTAAGATG
genomic: TGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAGgtacctattt ... atggatgcagATATTATGTGCGGGTAAGGATCTGGCAACAGAACAAACTTTTAGTAAGATG
EST: gi|27576974|gb|CA999668.1|CA999668
EST:     TGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAG                         ATATTATGTGCGGGTAAGGATCTGGCAACAGAACAAACTTTTAGTAAGATG
genomic: TGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAGgtacctattt ... atggatgcagATATTATGTGCGGGTAAGGATCTGGCAACAGAACAAACTTTTAGTAAGATG
EST: gi|29629841|gb|CB634850.1|CB634850
EST:     TGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAG                         ATATTATGTGCGGGTAAGGATCTGGCAACAGAACAAACTTTTAGTAAGATG
genomic: TGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAGgtacctattt ... atggatgcagATATTATGTGCGGGTAAGGATCTGGCAACAGAACAAACTTTTAGTAAGATG