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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTGgtatttgctctcatcctagtatcccccctcctctctatcctcccctgtctgatcttatttcttgatctttatatccttgaag

Basic information

species Oryza sativa
transcript LOC_Os01g43030.1
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g43030.1 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM2G047093_T01 (Zea mays), 5'ss of exon 16
GTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTGgtatttgctctcatcctagtatcccccctcctctctatcctcccctgtctgatcttatttcttgatctttatatccttgaag
||||| || || || ||||| ||||| |||||||| || || || ||||| ||||||||||| |||||||||||||||||||||||| ||||||    |   |     |  ||   | | | |   |   ||| |||| | | | |||| |  |||||  | |||
GTTGGCCTTGCCGAGAAGACTGCTGTCTTGTTTACAAAAGATGGTGATCAACACAATAATCTTCATGACATGCAGTGCATGTGgtatgtgctctttctcctctgctatctatctgttatgttcattc---tct-atctaactacatgatat--atatcacttaag

upper sequence: LOC_Os01g43030.1 (Oryza sativa), 5'ss of exon 16
lower sequence: EFJ27872 (Selaginella moellendorffii), 5'ss of exon 15
-----------------GTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTGgtatttgctctcatcctagtatcccccctcctctctatcctcccctgtctgatcttatttcttgatctttatatccttgaag
                 ||||  || || || || || || |   | || || ||||| |||||||| ||||| |||||  ||||||||||||||||||||||  |  |       | || |  |   | ||||  |    | |   |  |                               
TGTTGCAAGCCGACCAGGTTGAACTTGCCGAGAAAACTGCCGCGCTCTTCACCAAGGATGGCGATCAACACAACAATCTGTATGACATGCAGTGCATGTGgtaagtatttg---ttttgtgtttcagatgctctaaaagtcctcgccttag-------------------------------

upper sequence: LOC_Os01g43030.1 (Oryza sativa), 5'ss of exon 16
lower sequence: EFJ36800 (Selaginella moellendorffii), 5'ss of exon 15
-----------------GTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTGgtatttgctctcatcctagtatcccccctcctctctatcctcccctgtctgatcttatttcttgatctttatatccttgaag
                 ||||  || || || || || || |   | || || ||||| |||||||| || || |||||  ||||||||||||||||||||||  |  | |     | || |      | ||||  |    | |   |  |                               
TGTTGCAAGCCGACCAGGTTGAACTTGCCGAGAAAACTGCCGCGCTCTTCACCAAGGATGGCGATCAACATAACAATCTGTATGACATGCAGTGCATGTGgtaagtatttt---ttttgtgttttagatgctctaaaagtcctcgccttag-------------------------------

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|29635309|gb|CB640318.1|CB640318
EST:     ACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTG                         GTATGAGCTTGCTTCTGGTGAGAGTTACTATCGTCAAGGTGATCTCGGCAG
genomic: ACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTGgtatttgctc ... atccttgaagGTATGAGCTTGCTTCTGGTGAGAGTTACTATCGTCAAGGTGATCTCGGCAG
EST: gi|3761437|gb|C98685.1|C98685
EST:     ACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTG                         GTATGAGCTTGCTTCTGGTGAGAGTTACTATCGTCAAGGTGATCTCGGCAG
genomic: ACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTGgtatttgctc ... atccttgaagGTATGAGCTTGCTTCTGGTGAGAGTTACTATCGTCAAGGTGATCTCGGCAG
EST: gi|29643975|gb|CB648982.1|CB648982
EST:     ACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTG                         GTATGAGCTTGCTTCTGGTGAGAGTTACTATCGTCAAGGTGATCTCGGCAG
genomic: ACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTGgtatttgctc ... atccttgaagGTATGAGCTTGCTTCTGGTGAGAGTTACTATCGTCAAGGTGATCTCGGCAG
EST: gi|29635310|gb|CB640319.1|CB640319
EST:     ACTAAGGACGGCGATCAGCTCAATAATCTCCATGACATGCAGTGCATGTG                         GTATGAGCTTGCTTCTGGTGAGAGTTACTATCGTCAAGGTGATCTCGGCAG
genomic: ACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTGgtatttgctc ... atccttgaagGTATGAGCTTGCTTCTGGTGAGAGTTACTATCGTCAAGGTGATCTCGGCAG