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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGCTCTAGCTGCAGCATTTGGAAATGGCTTGTCGACATCTTGTGTGGTCAACATTGGCGCGCAAGTTACACAAGTAGTTTGTGTTGAGgtaataaccgtagcattttctttggtctttcactagccattgagaaatgagggttgtattcttaagtcgtaatatgaatagcttttctttagctttctagatactgcttacgtaccaatatattgtcctccttgatgtatgcag

Basic information

species Oryza sativa
transcript LOC_Os04g09860.2
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g09860.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G101250_T02 (Zea mays), 5'ss of exon 10
GAAGCTCTAGCTGCAGCATTTGGAAATGGCTTGTCGACATCTTGTGTGGTCAACATTGGCGCGCAAGTTACACAAGTAGTTTGTGTTGAGgtaataaccgtagcattttctttggtctttcactagccattgagaaatgagggttgtattcttaagtcgtaatatgaatagcttttctttagctttctagatactgcttacgtaccaatatattgtcctccttgatgtatgcag
||||||||| ||||||| ||||||||||| || || ||| ||||||| ||||||||||| || |||||||||||||||||||||||||||||||||||| | |  |||| ||      | || |          |  | | | || ||  ||| |   | || ||   ||   | | |  |  | |||  |   ||  |                                   
GAAGCTCTATCTGCAGCGTTTGGAAATGGTTTATCTACAACTTGTGTTGTCAACATTGGTGCTCAAGTTACACAAGTAGTTTGTGTTGAGgtaataacccttgtttttttttaatcactgcattgattt-----acctaaagatt-tagccttgacatggaaaatagcta---tctatccatgtgtctgaaccttgact-----------------------------------
















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|4878247|gb|AU062546.1|AU062546
EST:     CTTGTGTGGTCAACATTGGCGCGCAAGTTACACAAGTAGTTTGTGTTGAG                         GATGGTGTTGCTTTACCCCACACAGCCCTGGCGCTTCCATACGCTGGAGAT
genomic: CTTGTGTGGTCAACATTGGCGCGCAAGTTACACAAGTAGTTTGTGTTGAGgtaataaccg ... atgtatgcagGATGGTGTTGCTTTACCCCACACAGCCCTGGCGCTTCCATACGGTGGAGAT
EST: gi|66924657|gb|CX111505.1|CX111505
EST:     CTTGTGTGGTCAACATTGGCGCGCAAGTTACACAAGTAGTTTGTGTTGAG                         GATGGTGTTGCTTTACCCCACACAGCCCTGGCGCTTCCATATGGTGGAGAT
genomic: CTTGTGTGGTCAACATTGGCGCGCAAGTTACACAAGTAGTTTGTGTTGAGgtaataaccg ... atgtatgcagGATGGTGTTGCTTTACCCCACACAGCCCTGGCGCTTCCATACGGTGGAGAT
EST: gi|4878268|gb|AU062567.1|AU062567
EST:     CTTGTGTGGTCAACATTGGCGCGCAAGTTACACAAGTAGTTTGTGTTGAG                         GATGGTGTTGCTTTACCCCACACAGCCCTGGCGCTTCCATACGGTGGAGAT
genomic: CTTGTGTGGTCAACATTGGCGCGCAAGTTACACAAGTAGTTTGTGTTGAGgtaataaccg ... atgtatgcagGATGGTGTTGCTTTACCCCACACAGCCCTGGCGCTTCCATACGGTGGAGAT