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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATACATTCAGCATCAGACCCCCGCCCTCGGACAACTCTTTGTGGGGATTATTTTTACAACTACTTCTCTCGTGGTATTGATATCTTATTTGATGGGCAGgtatttatattcttacactaaggatgtctgcagttcaaagggcatgtttttttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcag

Basic information

species Oryza sativa
transcript LOC_Os06g49990.2
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49990.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G116434_T01 (Zea mays), 5'ss of exon 10
AATACATTCAGCATCAGACCCCCGCCCTCGGACAACTCTTTGTGGGGATTATTTTTACAACTACTTCTCTCGTGGTATTGATATCTTATTTGATGGGCAGgtatt---tatattcttacactaaggatgtctgcagttcaaagggca-tgtttttttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcag
 ||||| || ||||||||  || | |||||||| || |||||||| ||||| ||||||||||||||||| ||||| ||||||||||||||| |||| ||||| |    ||| |  | |||||| |||| | ||||   |       |   | ||||| |  | ||   | |      || | |      | | || | || |||||||||
CATACACTCCGCATCAGAAGCCAGGCCTCGGACGACCCTTTGTGGAGATTACTTTTACAACTACTTCTCACGTGGAATTGATATCTTATTTAATGGACAGgtgtggagtatttcatcacacta-ggatttgtgcaacactgtaaatagcatcttttttattggcttggatt-tggaatagcatattgacagactt-tattgtccttgcag

upper sequence: LOC_Os06g49990.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA01G37380.1 (Glycine max), 5'ss of exon 10
AATACATTCAGCATCAGACCCCCGCCCTCGGACAACTCTTTGTGGGGATTATTTTTACAACTACTTCTCTCGTGGTATTGATATCTTATTTGATGGGCAGgtatttatattcttacactaaggatgtctgcagttcaaagggcatgtttttttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcag
 || ||||| || |||||    || || ||||||||||| ||||| ||||| ||||| || || ||  |||||||| | || |||||||||||||| ||||| | ||    ||||||  |    ||  |    ||| |     |         | || | |  |||  | | | |    || | ||  || |              
TATTCATTCTGCTTCAGATTTTCGGCCACGGACAACTCTCTGTGGTGATTACTTTTATAATTATTTTACTCGTGGTCTGGACATCTTATTTGATGGACAGgtttgtaa---cttacatca----tgcttttgtttctatacatagtgacacaactgataatagaaactcctac-atgtctgttttattttcag-------------
















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|33687914|gb|CF316153.1|CF316153
EST:     ATTTTTACAACTACTTCTCTCGTGGTATTGATATCTTATTTGATGGGCAG                         ACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCA
genomic: ATTTTTACAACTACTTCTCTCGTGGTATTGATATCTTATTTGATGGGCAGgtatttatat ... ctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCA