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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGCATGAATGATAGGGGGGTCTCATACACTTTTGGTGCTGACAAAGTTTCAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAGgtacaattttaatgcaacatcttttcctttcagtattttttttggtcaactgaggtgatcatatttatatttcatgtgatgtcag

Basic information

species Oryza sativa
transcript LOC_Os03g16110.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g16110.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G160237_T02 (Zea mays), 5'ss of exon 3
GGGCATGAATGATAGGGGGGTCTCATACACTTTTGGTGCTGACAAAGTTTCAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAGgtacaat-------tttaatgcaacatcttttcctttcagtattttttttggtcaactgagg--tgatcatatttatatttcatgtgatgtcag-----
||||||||||||||| ||||||||||| || |||||||||||||| |||||||||||| || |||| ||||| ||||||||||| || || || || |||||||          |||| |||| | ||| ||    ||  | | |||    || |||||     |||   | |||||||| |||| ||||| |      
GGGCATGAATGATAGAGGGGTCTCATATACCTTTGGTGCTGACAAGGTTTCAGAATTCTTGCAAAAGCATGATCTTGATCTTATCTGTCGTGCTCACCAGgtaccgccttagcatttagtgcagcttctgttttgatctttttatttcacagttaactggaaattgaaggtgtttatattgcatgcgatgtgatgtcag

upper sequence: LOC_Os03g16110.1 (Oryza sativa), 5'ss of exon 2
lower sequence: AT2G29400.1 (Arabidopsis thaliana), 5'ss of exon 2
GGGCATGAATGATAGGGGGGTCTCATACACTTTTGGTGCTGACAAAGTTTCAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAGgtacaattttaatgcaacatcttttcctttcagtattttttttggtcaac-tgaggtgatcatatttatatttcatgtgatgtcag
||||||||||||| | || || |||||||||||||| |||||||||||  |||| ||| |||| ||||||||| | || ||||| || || || || |||||   |  || |      || | | || || ||| | || |     |      |  | |   |   | ||||   | || |   ||
GGGCATGAATGATCGTGGTGTTTCATACACTTTTGGAGCTGACAAAGTCGCAGAGTTCTTGGAGAAACATGACATGGACCTTATCTGTCGTGCCCACCAGgttttaacttga---gttatatctgccatttagtttattatgaaaactgtgcaaccttaatttgagtgtattggctctgtttatag

upper sequence: LOC_Os03g16110.1 (Oryza sativa), 5'ss of exon 2
lower sequence: AT3G46820.1 (Arabidopsis thaliana), 5'ss of exon 2
GGGCATGAATGATAGGGGGGTCTCATACACTTTTGGTGCTGACAAAGTTTCAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAGgtacaattttaatgcaacatcttttcctttcagtattttttttggtcaactgaggtgatcatatttatatttcatgtgatgtcag--
||| ||||||||| | || ||||| |||||||||||||||||||||||| | || ||  |   |||  ||||  | ||| |  | || || || || |||||   | |  | || |  |   |||||| |   | |||| |||||  ||  ||               |  |    || |  ||   
GGGGATGAATGATCGTGGTGTCTCCTACACTTTTGGTGCTGACAAAGTTGCTGAGTTTTTAATAAAGAATGATATGGATTTAGTCTGTCGTGCCCACCAGgtt--agtacattgtataaatgtttcctctagtttttttgtttgggaaatcgaatctgctgctcaagaacctataatgctcccacag

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|29680082|gb|CB676357.1|CB676357
EST:     CAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAG                         GTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATA
genomic: CAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAGgtacaatttt ... gtgatgtcagGTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATA
EST: gi|487319|gb|D30003.1|D30003
EST:     CAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAG                         GTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATA
genomic: CAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAGgtacaatttt ... gtgatgtcagGTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATA
EST: gi|300216266|gb|HO088051.1|HO088051
EST:     CAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAG                         GTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATA
genomic: CAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAGgtacaatttt ... gtgatgtcagGTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATA
EST: gi|87019837|gb|CI299235.1|CI299235
EST:     CAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAG                         GTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATA
genomic: CAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAGgtacaatttt ... gtgatgtcagGTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATA
EST: gi|58587689|gb|CF985997.1|CF985997
EST:     CAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAG                         GTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATA
genomic: CAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAGgtacaatttt ... gtgatgtcagGTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATA
EST: gi|7219932|gb|AU062542.2|AU062542
EST:     CAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAG                         GTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATA
genomic: CAGAATTCCTGGAAAAACATGACCTTGATCTTATTTGCCGGGCACATCAGgtacaatttt ... gtgatgtcagGTTGTTGAGGATGGATATGAGTTCTTTGCCGACAGACAACTTGTCACCATA