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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTTGAGACTATAATGGGCATCGAAGCTACTAGTGGTTTACGTGTGCTGGCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAGgtaattcactcttttctcttggacaactgatgttcaagcctcttaacttttgtgaataaagggtttaaagtaaaagtttgctagttaattttcttgtaat...

Basic information

species Oryza sativa
transcript LOC_Os06g07090.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g07090.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G030144_T01 (Zea mays), 5'ss of exon 6
GTGTTGAGACTATAATGGGCATCGAAGCTACTAGTGGTTTACGTGTGCTGGCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAGgtaattcactcttttctcttggacaactgatgtt-----caagcctcttaacttttgtgaataaagggtttaaagtaaaagtttgctagttaattttcttgtaat
|||| ||||| |||||| |||| |||||||| ||||||||||||||| ||||||| ||||| |||||| | ||| |||||||||| ||||| ||||| |||||  |      || ||||| |||| ||||| |      ||    | || | | |  || | |||   | |  | | ||| |||  ||  || || | ||     
GTGTGGAGACAATAATGAGCATTGAAGCTACAAGTGGTTTACGTGTGTTGGCAATTAATATTTTGGGTCGGTTTTTGTCCAACCGCGATAACAACATAAGgtagatttgctcttgctcttagacagctgatatggttaacatatttttttaatatattggacaaaaa-tgtggaattaaatttttatatctatttatgttt----

upper sequence: LOC_Os06g07090.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G017421_T02 (Zea mays), 5'ss of exon 6
GTGTTGAGACTATAATGGGCATCGAAGCTACTAGTGGTTTACGTGTGCTGGCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAGgtaattcactcttttctcttggacaactgatgttcaagcctcttaacttttgtgaataaagggtttaaagtaaaagtttgctagttaattttcttgtaat--
| || ||||| ||||||||||| |||||||| ||||||||||||||| ||||||| ||||| |||||| | ||| |||||||||||||||| ||||| |||||  |      || ||||| |||| ||||| |      |   |   |||  |  |||| |     || |    || | | |  |  ||||  || |  |  
GCGTGGAGACAATAATGGGCATTGAAGCTACAAGTGGTTTACGTGTGTTGGCAATTAATATTTTGGGTCGTTTTTTGTCCAACCGTGATAACAACATAAGgtagatttgctcttgctcttagacagctgatatggtgatcatattgttttaatatataaggaa--aaaggctggagatagtttttatatttatttattttta

upper sequence: LOC_Os06g07090.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT1G23900.1 (Arabidopsis thaliana), 5'ss of exon 7
GTGTTGAGACTATAATGGGCATCGAAGCTACTAGTGGTTTACGTGTGCTGGCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAGgtaattcactcttttctcttggac---aactgatgttcaagcctcttaacttttgtgaataaagggtttaaagtaaaagtttgctagttaattttcttgtaat
||||||| || || |||| ||| ||||  || | | | || |||||||| || |||||||||||||| |||||  | || ||||| || |||||||||||||  |  || |  | | | |  |    |  ||||  |         | |  | |||   ||| ||   ||   ||   || |  |  ||   | | |  |   
GTGTTGAAACAATCATGGCCATTGAAGACACCAATAGCTTGCGTGTGCTTGCTATCAATATCTTGGGAAGATTCTTATCTAACCGCGACAATAACATCAGgt--tcaaccccctacacctcaattttatttgataatagtatggtattatatatgtttgtaatggaactagcttacttgtatttttcttctgtctatcatct-

upper sequence: LOC_Os06g07090.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT1G60070.2 (Arabidopsis thaliana), 5'ss of exon 6
GTGTTGAGACTATAATGGGCATCGAAGCTACTAGTGGTTTACGTGTGCTGGCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAGgtaattcactcttttctcttggacaactgatgttcaagcctcttaacttttgtgaataaagggtttaa--agtaaaagtttgctagttaattttcttgtaat
| ||| | || |||||| |||||||||  | | ||||  |||| || || |||||||||||||| || | |||  |||||||||| ||||||||||||||||  || |     | |      |     | | ||         |||  | || ||    |   || |   |  | ||  || | | || | |||  | ||| 
GCGTTCAAACGATAATGAGCATCGAAGAAAATGGTGGCCTACGAGTCCTTGCAATCAATATCTTAGGAAAATTCTTGTCCAACCGAGATAATAACATCAGgtt-tttatcgagtaccaccatatttgagtttttttttgtaactaatctctgagatcttattattcatctacaataatcttccaaatttagtttgctataa-

upper sequence: LOC_Os06g07090.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv01s0026g00310.t01 (Vitis vinifera), 5'ss of exon 6
GTGTTGAGACTATAATGGGCATCGAAGCTACTAGTGGTTTACGTGTGCTGGCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAGgtaattcactcttttctcttggacaactgatgttcaagcctctta-acttttgtgaataaagggtttaaagtaa--aagtttgctagttaattttcttgtaat
||||||| ||||| ||| |||| |||| ||||||||| ||||||||||| || |||||||||||||| |||||  |||| || ||||| || || ||||||||| |     || | | ||       ||  |||||| |     |    | | ||    |    |||    | |  |  ||    ||||  | || |  |   
GTGTTGAAACTATTATGAGCATTGAAGATACTAGTGGCTTACGTGTGCTTGCCATCAATATCTTGGGAAGATTCTTGTCAAATCGTGACAACAATATCAGgtaaattttcattattttttat---tttggagttcaacctaggcatgaatatatggtctatttatttttgttgattagattcctaagttgctattatcattgg

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|29624901|gb|CB629912.1|CB629912
EST:     GCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAG                         ATATGTTGCTCTGAACATGCTTATGAAGGCCATGGAGGTAGACACGCAAGC
genomic: GCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAGgtaattcact ... gtgctttcagATATGTTGCTCTGAACATGCTTATGAAGGCCATGGAGGTAGACACGCAAGC
EST: gi|58654587|gb|CK043267.1|CK043267
EST:     GCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAAT-ACATCAG                         ATATGTTGCTCTGAACATGCTTATGAAGGCCATGGAGGTAGACACGCAAGC
genomic: GCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAGgtaattcact ... gtgctttcagATATGTTGCTCTGAACATGCTTATGAAGGCCATGGAGGTAGACACGCAAGC
EST: gi|29672354|gb|CB668629.1|CB668629
EST:     GCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAG                         ATATGTTGCTCTGAACATGCTTATGAAGGCCATGGAGGTAGACACGCAAGC
genomic: GCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAGgtaattcact ... gtgctttcagATATGTTGCTCTGAACATGCTTATGAAGGCCATGGAGGTAGACACGCAAGC
EST: gi|58673720|gb|CK062406.1|CK062406
EST:     GCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAG                         ATATGTTGCTCTGAACATGCTTATGAAGGCCATGGAGGTAGACACGCAAGC
genomic: GCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAGgtaattcact ... gtgctttcagATATGTTGCTCTGAACATGCTTATGAAGGCCATGGAGGTAGACACGCAAGC
EST: gi|88351874|gb|CI624679.1|CI624679
EST:     GCAATCAATATCTTGGGTAGATCTCTGTACAACCGTGATAATAACATCAG                         ATATGTTGCTCTGAACATGCTTATGAAGGCCATGGAGGTAGACACGCAAGC
genomic: GCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAGgtaattcact ... gtgctttcagATATGTTGCTCTGAACATGCTTATGAAGGCCATGGAGGTAGACACGCAAGC
EST: gi|58655701|gb|CK044381.1|CK044381
EST:     GCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAG                         ATATGTTGCTCTGAACATGCTTATGAAGGCCATGGAGGTAGACACGCAAGC
genomic: GCAATCAATATCTTGGGTAGATTTCTGTCCAACCGTGATAATAACATCAGgtaattcact ... gtgctttcagATATGTTGCTCTGAACATGCTTATGAAGGCCATGGAGGTAGACACGCAAGC