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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATTTTGCAAGACCACCGAAATATTGGAAGACTCACAGTCTCAAGAGATTGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATGgtaaagtccgtatttatactattcttgattttgtttgctctggctgattttgaagaatttctgctcagcatacacctgaacctgccgcactgcaaaagct...

Basic information

species Oryza sativa
transcript LOC_Os01g43870.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g43870.4 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G068690_T03 (Zea mays), 5'ss of exon 2
TCATTTTGCAAGACCACCGAAATATTGGAAGACTCACAGTCTCAAGAGATTGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATGgtaaagtccgtatttatactattcttgattttgtttgctctggctgattttgaagaatttctgctcagcatacacctgaacctgccgcactgcaaaagct----
 |||||||||||||||| |||| | ||||| | |||||  |||||||| || |||| |||| ||| | || ||||||||| ||  |||||||||||||||||||||||   ||  || | | |||    |||   ||    |  | ||||  ||   || || ||    ||  |  ||  | |  |    |   |  |      
ACATTTTGCAAGACCACTGAAACACTGGAACATTCACACCCTCAAGAGGTTACACTTGATAAAACGGTGGCGGGGTCAACGCTAATAAGTCATCAAAATGgtaaagtcttcatagattccagtctca--tttacctggctagattcatttc-aatctttcctactgtcaatgaat-tgtgcttttcctgtttggagcgtatata
















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|33676393|gb|CF304632.1|CF304632
EST:     TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATG                         TTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
genomic: TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATGgtaaagtccg ... tcgtttgcagTTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
EST: gi|88359907|gb|CI617818.1|CI617818
EST:     TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTAATCAAAATG                         TTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
genomic: TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATGgtaaagtccg ... tcgtttgcagTTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
EST: gi|88364965|gb|CI616384.1|CI616384
EST:     TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATG                         TTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGC
genomic: TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATGgtaaagtccg ... tcgtttgcagTTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGC
EST: gi|88347839|gb|CI635932.1|CI635932
EST:     TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATG                         TTTGCTCTACTTCTGAAGTATCA
genomic: TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATGgtaaagtccg ... tcgtttgcagTTTGCTCTACTTCTGAAGTATCA
EST: gi|88390836|gb|CI611062.1|CI611062
EST:     TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATG                         TTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
genomic: TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATGgtaaagtccg ... tcgtttgcagTTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA