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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCGGCTCGTTCTTGAGGATGGTTCAGTTTGGAAGGCCAAGTCTTTTGGTGCTTCAGGAACACAAGTTGGTGAAGTGGTATTTAATACATCTTTGACAGGgtaaatcaactaaccgtttgagtgatggcatttgtttcctgttgtggttgagatgtgcttattgttcttcctgatagagaaacaactaacctcatcaaatagttgagacgcgcgtactgcttattgacaacaggaaacaactaacctcatcaaatgggctgcag

Basic information

species Oryza sativa
transcript LOC_Os02g47850.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G029573_T01 (Zea mays), 5'ss of exon 3
CTCGGCTCGTTCTTGAGGATGGTTCAGTTTGGAAGGCCAAGTCTTTTGGTGCTTCAGGAACACAAGTTGGTGAAGTGGTATTTAATACATCTTTGACAGGgtaaatcaactaaccgtttgagtgatggcatttgtttcc---------tgttgtggttgagatgtgcttattgttcttcctgatagagaaacaactaacctcatcaaatagttgagacgcgcgtactgcttattgacaacaggaaacaactaacctcatcaaatgggctgcag
|||| || || || || ||||| ||||| |||| |||||||||||||||||||||||||||||||||||||||||| || || || |||||  |||||||||||||||  |    |  ||||| | | | ||||| |           |||| ||  ||   | || ||||||||  ||    | | |  |    |  | ||                                                                       
CTCGTCTTGTCCTGGAAGATGGATCAGTGTGGACGGCCAAGTCTTTTGGTGCTTCAGGAACACAAGTTGGTGAAGTTGTTTTCAACACATCACTGACAGGgtaaatcattttg--gactgagttacg-cttttgtctaagtggggcgatgttttgcatgtcttttggttattgtttatctgagtggtggtatgtttcgcatct----------------------------------------------------------------------

upper sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G147450_T02 (Zea mays), 5'ss of exon 2
CTCGGCTCGTTCTTGAGGATGGTTCAGTTTGGAAGGCCAAGTCTTTTGGTGCTTCAGGAACACAAGTTGGTGAAGTGGTATTTAATACATCTTTGACAGGgtaaatcaactaaccgtttgagtgatggcatt---tgtttcctgttgtggttgagatgtgcttattg-----ttcttcctgatagagaaacaactaacctcatcaaatagttgagacgcgcgtactgcttattgacaacaggaaacaactaacctcatcaaatgggctgcag
|||| || || || || ||||||||||| |||| ||||||||||||||| || |||||||||||||| |||||||| || || || |||||  ||||||||||| |||  |    |  ||||| |||   ||   ||  |  ||   || ||   ||||  |  |||     || || |||  ||  ||| ||  | |||  |                                                                     
CTCGTCTTGTCCTGGAAGATGGTTCAGTGTGGAGGGCCAAGTCTTTTGGCGCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGGgtaagtcattttg--gactgagttatgtttttgtctgggtagtggcatgttttgcatgtcttggttggttgtttttttctgcgaggaaaataa--agccttgta--------------------------------------------------------------------

upper sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA04G39390.1 (Glycine max), 5'ss of exon 2
CTCGGCTCGTTCTTGAGGATGGTTCAGTTTGGAAGGCCAAGTCTTTTGGTGCTTCAGGAACACAAGTTGGTGAAGTGGTATTTAATACATCTTTGACAGGgtaaatcaactaaccgtttgagtgatggcatttgtttcctgttgtggttgagatgtgcttattgttcttcctgatagagaaacaactaacctcatcaaatagttgagacgcgcgtactgcttattgacaacaggaaacaactaacctcatcaaatgggctgcag
|| | || || ||||| ||||||||| ||||||  || || || |||||||||||||| || |||||||| || || || || |||||||| |||||||||| |   |||||      ||| |  ||| || ||| |    || |  |   | | |||||         | || |  | |     ||    |  |    | |||| |  | | ||  || ||||                                        
CTAGACTTGTGCTTGAAGATGGTTCAATTTGGAGAGCAAAATCGTTTGGTGCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaacta------tgaatcttgggatgtgtgtttctttttcat--ggctttgcttg--------catgctgaatatgtggctggttttct----ttgttgtgttgtgtgtg-tgattatcag-------------------------------------

upper sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA06G15510.3 (Glycine max), 5'ss of exon 2
CTCGGCTCGTTCTTGAGGATGGTTCAGTTTGGAAGGCCAAGTCTTTTGGTGCTTCAGGAACACAAGTTGGTGAAGTGGTATTTAATACATCTTTGACAGGgtaaatcaactaaccgtttgagtgatggcatttgtttcctgttgtggttgagatgtgcttattgttcttcctgatagagaaacaactaacctcatcaaatagttgagacgcgcgtactgcttattgacaacaggaaacaactaacctcatcaaatgggctgcag
|| | || || ||||| ||||||||| ||||||| || || || ||||||||||| || || |||||||| ||||| || || |||||||| |||||||||| |    ||||      ||| |  ||| ||  || | || ||    ||  | | |||||         | || || |  |     |    |  |    | |||| |  | | ||  || || |                                        
CTAGACTTGTGCTTGAAGATGGTTCAATTTGGAAAGCAAAATCGTTTGGTGCTTCGGGGACTCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGGgtgaggatacta------tgaatcttgggatgcgtgttctttt----tttggttttgcttg--------catgctaaatgagtggttggttttct----ttgttgtgttgtgtgtg-tgattctcag-------------------------------------

upper sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA05G32190.1 (Glycine max), 5'ss of exon 2
CTCGGCTCGTTCTTGAGGATGGTTCAGTTTGGAAGGCCAAGTCTTTTGGTGCTTCAGGAACACAAGTTGGTGAAGTGGTATTTAATACATCTTTGACAGGgtaa-atcaactaaccgtttgagtga--tggcatttgtttcctgttgtggttgagatgtgcttattgttcttcctgatagagaaacaactaacctcatcaaatagttgagacgcgcgtactgcttattgacaacaggaaacaactaacctcatcaaatgggctgcag
|| | ||  |  | || ||||| ||| | ||||| || ||||| ||||||||||||||||| |||||||| ||||| || ||||||||||| ||||| |||| | || |||||||  | |   | |   ||||||  ||   | |     | || ||     | ||    ||  | ||  |  || | ||     |  ||                                                                   
CTAGACTTATGTTAGAAGATGGATCAATCTGGAAAGCAAAGTCATTTGGTGCTTCAGGAACCCAAGTTGGAGAAGTTGTTTTTAATACATCATTGACTGGgtgagatgaactaactttatatataaaccggcattcattcaatctgagcatggatataccgatgtttcatttgtttatttaataatatctgttaactgcag------------------------------------------------------------------

upper sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv04s0044g00550.t01 (Vitis vinifera), 5'ss of exon 2
CTCGGCTCGTTCTTGAGGATGGTTCAGTTTGGAAGGCCAAGTCTTTTGGTGCTTCAGGAACACAAGTTGGTGAAGTGGTATTTAATACATCTTTGACAGGgtaaatcaactaaccgtttgagtgatggcatttgtttcctgttgtggttgagatgtgcttattgttcttcctgatagagaaacaactaacctcatcaaatagttgagacgcgcgtactgcttattgacaacaggaaacaactaacctcatcaaatgggctgcag
|| | || |||||||| ||||| ||||| |||||||| ||||| ||||||||||||||||| |||||||| |||||||| || ||||||||||| ||||||| |    ||       || | |       ||  |||  |      || ||| |   | | |||||    ||||  || |||      || | ||   |||    |||   || | ||  ||| |                                       
CTAGACTTGTTCTTGAAGATGGCTCAGTCTGGAAGGCAAAGTCATTTGGTGCTTCAGGAACTCAAGTTGGAGAAGTGGTTTTCAATACATCTTTAACAGGgttagatgacg------ttaaat-------ttcttttaattagaaagtggagctagacctcttgtt---tctgaaggataaa------acataataggata----agaattgctttctcattaatt--------------------------------------

upper sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 3
lower sequence: EFJ19894 (Selaginella moellendorffii), 5'ss of exon 2
CTCGGCTCGTTCTTGAGGATGGTTCAGTTTGGAAGGCCAAGTCTTTTGGTGCTTCAGGAACACAAGTTGGTGAAGTGGTATTTAATACATCTTTGACAGGgtaaatcaactaaccgtttgagtgatggcatttgtttcctgttgtggttgagatgtgcttattgttcttcctgatagagaaacaactaacctcatcaaatagttgagacgcgcgtactgcttattgacaacaggaaacaactaacctcatcaaatgggctgcag
|  |||| |||||| ||||||| ||||| ||||| | |||||||||||| ||||| ||||| ||||| || ||||| || || |||||  |  |||| |||||  |  | |   | ||  | |       || | |  |        || | | ||| |   ||| |||||                                                                                             
CAAGGCTTGTTCTTCAGGATGGATCAGTGTGGAATGGCAAGTCTTTTGGAGCTTCTGGAACGCAAGTCGGAGAAGTTGTTTTCAATACTGCCATGACCGGgtatgt--atttctctttccatt-------ttggatcacaaccac--tttaaa-gtgttgcatgtccttcccag------------------------------------------------------------------------------------------

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|58656843|gb|CK045523.1|CK045523
EST:     GCTTCAGGAACACAAGTTGGTGAAGTGGTATTTAATACATCTTTGACAGG                         GTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCAT
genomic: GCTTCAGGAACACAAGTTGGTGAAGTGGTATTTAATACATCTTTGACAGGgtaaatcaac ... tgggctgcagGTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCAT
EST: gi|58690939|gb|CK079626.1|CK079626
EST:     GCTTCAGGAACACAAGTTGGTGAAGTGGTATTTAATACATCTTTGACAGG                         GTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCAT
genomic: GCTTCAGGAACACAAGTTGGTGAAGTGGTATTTAATACATCTTTGACAGGgtaaatcaac ... tgggctgcagGTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCAT