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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCACAAGCGTCCCCTTGATGTTACCTCTGTTGTGCAGGGAAAGACAAGGTTTTTTAGTGTCTTGATGCTTACTTGGGgtatgccgtgtattagcttgatgctaagcttttttctctcttaaactacacgtctatacccccataacactgactgtcactctcagagcttgttctcccactatctatttctggggcactaagagaaaacgatttatgaactgcag

Basic information

species Oryza sativa
transcript LOC_Os07g37580.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g37580.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G057475_T03 (Zea mays), 5'ss of exon 6
GTCACAAGCGTCCCCTTGATGTTACCTCTGTTGTGCAGGGAAAGACAAGGTTTTTTAGTGTCTTGATGCTTACTTGGGgtatgccgtgtattagcttgatgctaagctttt-----ttctctcttaaactacacgtctatacccccataacactgactgtcactctcagagcttgttctcccactatctatttctggggcactaaga--gaaaacgatttatgaactgcag
|||| || ||| | ||||||||||| ||||||||||||||||| |||||||| ||||||||| |||||||||| |||||||||| |  ||| |  |  |||||||   |||           || | |  |||   |     || || |       |  ||||| ||     |||       |  || || ||          |||   ||||| ||| ||||||||||||
GTCATAAACGTGCACTTGATGTTACTTCTGTTGTGCAGGGAAACACAAGGTTCTTTAGTGTCCTGATGCTTACATGGGgtatgcagcatataatttctatgctaactatttgaaaacaacagctgagaacacagaccaccttcctcagagattgctccatcactttctct-tttgccgcagtaaaatttaattgacaactgacaagcctgaaaatgatatatgaactgcag

upper sequence: LOC_Os07g37580.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT4G21534.1 (Arabidopsis thaliana), 5'ss of exon 6
GTCACAAGCGTCCCCTTGATGTTACCTCTGTTGTGCAGGGAAAGACAAGGTTTTTTAGTGTCTTGATGCTTACTTGGGgtatgccgtgtattagcttgatgctaagcttttttctctcttaaact-acacgtctatacccccataacactgactgtcactctcagagcttgttctcccactatctatttctggggcactaagagaaaacgatttatgaactgcag
|||| || ||| |  | |||||| |  |  |||  || || || || |  || || ||||||||||||||| |||||||||||||    | ||  ||  | ||    |||  | | ||   |  | | |    |||   |  || | | | |        ||    |   || |||    |     |   | |  || | |    |                   
GTCATAAACGTTCTGTAGATGTTGCTACAATTGCACAAGGGAATACCAAATTCTTCAGTGTCTTGATGCTTGCTTGGGgtatgcc----agtaaattc-tacttctttttgctatgtccagagttcagaaagttatttgcaaatgaaagtaatacatgagcttgctgaacgtactctttgttgtattgattagtccatttatttcag------------------

upper sequence: LOC_Os07g37580.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv00s0181g00250.t01 (Vitis vinifera), 5'ss of exon 6
GTCACAAGCGTCCCCTTGATGTTACCTCTGTTGTGCAGGGAAAGACAAGGTTTTTTAGTGTCTTGATGCTTACTTGGGgtatgccgtgtattagcttgatgctaagcttttttctctcttaaactacacgt--ctatacccccataacact--gactgtcactctcagagcttgttctcccactatctatttctggggcactaagaga---aaacgatttatg-aactgcag--------------------------------
|||| ||| || | || |||||  |  |  |  |||| ||  |||| |  |||||||| |||||||||||| ||||||||||| |    |||  |   |        |    |     |  |||| || ||  || |    |   |    |  |||   |  ||| |||   ||       | |  |||      |    |||   ||       |||||    | ||  |                                 
GTCATAAGTGTTCACTGGATGTGGCTACCATCTTGCAAGGGGAGACCAAATTTTTTAGCGTCTTGATGCTTGCTTGGGgtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactggatttttaagacaagctttctaagaatatgcctctggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttagtattccag

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|218479329|gb|FG969597.1|FG969597
EST:     TGTTGTGCAGGGAAAGACAA-GTTTTTTAGTGTCTTGATGCTTACTTGGG                         GTCTGGTAGCTGATATCGATATTGAGTCAGAGAAGTACAGGTGGATGGGCA
genomic: TGTTGTGCAGGGAAAGACAAGGTTTTTTAGTGTCTTGATGCTTACTTGGGgtatgccgtg ... tgaactgcagGTCTGGTAGCTGATATCGATATTGAGTCAGAGAAGTACAGGTGGATGGGCA