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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAGCAGCATATGATACAGTGGCGAAGAAGATGGCGTTCTTTGATCCTTCACGGAGTAAAGATTTTCTGTTCATCTCAGGAACCAAGgtacagataaattttcacataagtgctttgcagcagagacaattttgttctgttaaaaactaactttacaaatcaaaaccag

Basic information

species Oryza sativa
transcript LOC_Os04g02050.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g02050.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G158147_T01 (Zea mays), 5'ss of exon 4
GTAGCAGCATATGATACAGTGGCGAAGAAGATGGCGTTCTTTGATCCTTCACGGAGTAAAGATTTTCTGTTCATCTCAGGAACCAAGgtacagata----aattttcacataagtgctttgcagcagagacaattttgttctgttaaaaactaactttacaaatcaaaaccag
|||||||| ||||||||||| || ||| ||||||| || |||||||||||||| ||| ||||||||||||||||||| ||||||||||||          |||| |||   |  |  || | | |||       ||  | ||| |||    | || | ||| |||||  ||||
GTAGCAGCTTATGATACAGTAGCAAAGGAGATGGCCTTTTTTGATCCTTCACGCAGTCAAGATTTTCTGTTCATCTCTGGAACCAAGgtaggttcgccacaattgtcattcagtt--ttcgtaccagcagtggattactcctgctaaccgttgacctcacatatcaa--ccag

upper sequence: LOC_Os04g02050.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv18s0001g14010.t01 (Vitis vinifera), 5'ss of exon 4
GTAGCAGCATATGATACAGTGGCGAAGAAGATGGCGTTCTTTGATCCTTCACGGAGTAAAGATTTTCTGTTCATCTCAGGAACCAAGgtacagataaattttcacataagtgctttgcagcagagacaattttgttctgttaa----aaactaactttacaaatcaaaaccag--------------
|| ||||||||||| |||||||  ||||||||||| || ||||||||||||||   ||| |||||||| ||||| |||||||||||||||   | |   ||         |  ||  ||| || |  | || ||    ||  |    |||  |  |||   |||   ||                  
GTTGCAGCATATGACACAGTGGGAAAGAAGATGGCCTTTTTTGATCCTTCACGTGCTAAGGATTTTCTCTTCATTTCAGGAACCAAGgtagcaacagcattctgatctcctagttgtcagtagtgtaacttatgcctcgtggagctgaaaacagtttttggaatggcaatttttgttggtagttgca
















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|12404792|gb|AU166393.1|AU166393
EST:     TCTTTGATCCTTCACGGAGTAAAGATTTTCTGTTCATCTCAGGAACCAAG                         ATGCGGGCTTTTGCGAAAAGTGGAGAGAACCCTCCTGACGGTTTCATGTGC
genomic: TCTTTGATCCTTCACGGAGTAAAGATTTTCTGTTCATCTCAGGAACCAAGgtacagataa ... tcaaaaccagATGCGGGCTTTTGCGAAAAGTGGAGAGAACCCTCCTGACGGTTTCATGTGC