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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTGAAGCTGTAATGTCTTTTGTTCCAGTGGACAAGATCGCCGTCCATTTCCATGACACATACGGCCAAGCCCTTGCCAACATACTGGTCTCTCTCCAAgtaagcaaccacacttcacatcctgccaatgccaatgaacaaaccatcttactgaaaaacagacacagaacaaccagaaatgctctgttggtctaacatttccttttgtattaccag

Basic information

species Oryza sativa
transcript LOC_Os12g04020.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g04020.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G095141_T02 (Zea mays), 5'ss of exon 8
GCTTGAAGCTGTAATGTCTTTTGTTCCAGTGGACAAGATCGCCGTCCATTTCCATGACACATACGGCCAAGCCCTTGCCAACATACTGGTCTCTCTCCAAgtaagcaaccacacttcacatcctgccaatg-ccaatga-acaaaccatcttactgaaaaacagacacaga-acaaccagaaatgctctgttggtctaacatttccttttgtattaccag
               ||| ||||| || ||||||||||| ||||| |||||||| || || ||||| || |||||||||||||| || ||||| || |||||||||||    ||   |  |   | || ||  | | || |   |      || ||   |||| ||||||| |||  || | |   ||  |||      ||                   
---------------GTCGTTTGTCCCGGTGGACAAGATTGCCGTTCATTTCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAGTAAGCAAAGCAACGgtatgtttcgtcattggtctacgacattcatagagata-tgcctaacacacacagacacacacatacacattc-attgtctcgtcag------------------

upper sequence: LOC_Os12g04020.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G095141_T01 (Zea mays), 5'ss of exon 6
GCTTGAAGCTGTAATGTCTTTTGTTCCAGTGGACAAGATCGCCGTCCATTTCCATGACACATACGGCCAAGCCCTTGCCAACATACTGGTCTCTCTCCAAgtaagcaaccacacttcacatcctgccaatg-ccaatga-acaaaccatcttactgaaaaacagacacaga-acaaccagaaatgctctgttggtctaacatttccttttgtattaccag
|||| ||||||| ||||| ||||| || ||||||||||| ||||| |||||||| || || ||||| || |||||||||||||| || ||||| || |||||||||||    ||   |  |   | || ||  | | || |   |      || ||   |||| ||||||| |||  || | |   ||  |||      ||                   
GCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACAAGATTGCCGTTCATTTCCACGATACGTACGGGCAGGCCCTTGCCAACATCCTCGTCTCCCTTCAAgtaagcaaagcaacggtatgtttcgtcattggtctacgacattcatagagata-tgcctaacacacacagacacacacatacacattc-attgtctcgtcag------------------
















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|88985612|gb|CI016321.1|CI016321
EST:     TCCATGACACATACGGCCAAGCCCTTGCCAACATACTGGTCTCTCTCCAA                         CTGGGGATCAACATAGTGGACTCATCAGTGTCAGGACTGGGAGGCTGCCCA
genomic: TCCATGACACATACGGCCAAGCCCTTGCCAACATACTGGTCTCTCTCCAAgtaagcaacc ... gtattaccagCTGGGGATCAACATAGTGGACTCATCAGTGTCAGGACTGGGAGGCTGCCCA
EST: gi|38472231|gb|CF956362.1|CF956362
EST:     TCCATGACACATACGGCCAAGCCCTTGCCAACATATTGGTCTCTCTCCAA                         CTGGGGATCAACATAGTGGACTGATCAGTGTCAGGACTGGGAGGCTGCCAA
genomic: TCCATGACACATACGGCCAAGCCCTTGCCAACATACTGGTCTCTCTCCAAgtaagcaacc ... gtattaccagCTGGGGATCAACATAGTGGACTCATCAGTGTCAGGACTGGGAGGCTGCCCA
EST: gi|88906198|gb|CI375270.1|CI375270
EST:     TCCATGACACATACGGCCAAGCCCTTGCCAACATACTGGTCTCTCTCCAA                         CTGGGGATCAACATAGTGGACTCATCAGTGTCAGGACTGGGAGGCTGCCCA
genomic: TCCATGACACATACGGCCAAGCCCTTGCCAACATACTGGTCTCTCTCCAAgtaagcaacc ... gtattaccagCTGGGGATCAACATAGTGGACTCATCAGTGTCAGGACTGGGAGGCTGCCCA