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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_Os01g43870.4
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|88339994|gb|CI650441.1|CI650441
EST:     TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATG                         TTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
genomic: TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATGgtaaagtccg ... tcgtttgcagTTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
EST: gi|33676393|gb|CF304632.1|CF304632
EST:     TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATG                         TTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
genomic: TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATGgtaaagtccg ... tcgtttgcagTTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
EST: gi|33796709|gb|CF324222.1|CF324222
EST:     TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATG                         TTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
genomic: TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATGgtaaagtccg ... tcgtttgcagTTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
EST: gi|88571056|gb|CI662429.1|CI662429
EST:     TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATG                         TTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
genomic: TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATGgtaaagtccg ... tcgtttgcagTTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
EST: gi|88339689|gb|CI660479.1|CI660479
EST:     TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATG                         TTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
genomic: TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATGgtaaagtccg ... tcgtttgcagTTTGCTCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTCA
EST: gi|88294483|gb|CI667457.1|CI667457
EST:     TGC-CTCGATACAACAGCGGTGGGGTCAACACTTCTAAGTCCTCAAACTG                         TTTGCTCCTACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTC
genomic: TGCACTCGATAGAACAGCGGTGGGGTCAACACTTCTAAGTCATCAAAATGgtaaagtccg ... tcgtttgcagTTTGCTC-TACTTCTGAAGTATCAGGGGGAAACTTTGGAATCGCTGAAGTC