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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAACCGCTGCAAGGATCCTCAGTGGCATAACTTGGATCGCTACTTTGACAAgtttgattcgtttttcacccctatgttttataaagcaatgatatagggagtattaagttagtgctttgctgcatcaaaatatttcag

Basic information

species Oryza sativa
transcript LOC_Os01g65330.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G148773_T03 (Zea mays), 5'ss of exon 3
GGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAACCGCTGCAAGGATCCTCAGTGGCATAACTTGGATCGCTACTTTGACAAgtttgattcgtttttcacccctatgttttataaag-caatgatataggg------agtattaagttag-tgctttgctgc-atcaaaatatttcag
|||||||||||||||||||||||||||||||||||||||||||||  | |||||||||||||||||||| || ||| | ||||||||||| ||||    |||  |||  ||||||      |||| || ||| | | |  ||      |  ||||| | ||  |||||  ||| |||||| | ||||||
GGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAATTGTTGCAAGGATCCTCAGTGGCACAATTTGAACCGCTACTTTGATAAgtaaagttcactttggacccctgcagcctatagaggcaaaggttttagggtattgaaaattaactcaggcgcttttatgccatcaaactctttcag

upper sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G046846_T01 (Zea mays), 5'ss of exon 4
GGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAACCGCTGCAAGGATCCTCAGTGGCATAACTTGGATCGCTACTTTGACAAgtttgattcgtttttcacccctatgttttataaag-caatgatataggg------agtattaagttagtgctttgctgc-atcaaaatatttcag
|||||||||||||||||| |||||||||||||||||||||||||| || |||||||||||||||||||| |||||||| ||||||||||| ||||   ||||  |||   ||| |      |||| || ||| ||| |  ||      |  ||||| | || |||||  ||| |||||| | ||||||
GGAAGAGTTGAAAGTGTTCTCTACAGAAGTTGTTCGCTTTGGAAATCGTTGCAAGGATCCTCAGTGGCACAACTTGGACCGCTACTTTGATAAgtaaaattcactttgagcccttgcaacctatagagacaaagattttagggtattaaaaattaactcagcgcttttatgccatcaaactctttcag

upper sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA08G00670.1 (Glycine max), 5'ss of exon 3
GGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAACCGCTGCAAGGATCCTCAGTGGCATAACTTGGATCGCTACTTTGACAAgtttgattcgtttttcacccctatgttttataaag---caatgatatagggagtattaagttagtgctttgctgcatcaaaatatttcag-------------------
||| ||||||||||| ||||||   || ||  |||| |||||||| || |  ||||||||||||||||| |||||||| || |||||||| ||||   ||   || | | | |  |  |  | |||     ||    || ||| |     |  ||||   ||       |||   |    ||                    
GGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAAgtaatatgaattgtactcactcaattcatctaagttttcagctttacaggaaaacaaattttagcctttcatgttttcattctgacccatcttttattgtaaattttag

upper sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA20G31400.1 (Glycine max), 5'ss of exon 6
GGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAACCGCTGCAAGGATCCTCAGTGGCATAACTTGGATCGCTACTTTGACAAgt--ttg-attcg---tttttcacccctatgttttataaagcaatgatatagggagtattaagttagtgctttgctgcatcaaaatatttcag-------------------------------------------
 |||||||||||| | ||||||   |||||||| || |||||||| || || || |||||||| ||||| ||| |||||||||| ||||| ||||  ||| | | |   || || | |  | | |||| | |     | || |||  |  ||| | ||| |  |    |  ||     | |  ||                                            
AGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtagttgaacttattaatctttgtatttttttagatc-taatctagttaa-attgatttaatcttaccttatattttcttgtaacatctaacgtgttagttatttattttttttctttgttgatgtttag

upper sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA05G33040.1 (Glycine max), 5'ss of exon 3
GGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAACCGCTGCAAGGATCCTCAGTGGCATAACTTGGATCGCTACTTTGACAAgtttgattcgtttttcacccctatgttttataaagcaatga--tatagggagtattaagtt-agtgctttgctgcatcaaaatatttcag-------------------
||| ||||||||||| ||||||   || ||  |||| |||||||| || |  ||||||||||||||||| |||||||| || |||||||| ||||   ||   || | | | |  |  |  | |||     |    | | ||||  |  || || ||   ||       |||   |    ||                    
GGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAAgtaatataaattgtactcactcaattcatctaagtttttagcctttcgggaaaacaaattttagcctttcatattttcattctgacccatcttttattgtaaattttag

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|33799472|gb|CF325594.1|CF325594
EST:     AACCGCTGCAAGGATCCTCAGTGGCATAACTTGGATCGCTACTTTGACAA                         GTTTGCATCAGAACGGACACCTCAGCATCACTTGAAAGAAGAGGCAGAATC
genomic: AACCGCTGCAAGGATCCTCAGTGGCATAACTTGGATCGCTACTTTGACAAgtttgattcg ... aatatttcagGTTTGCATCAGAACGGACACCTCAGCATCACTTGAAAGAAGAGGCAGAATC