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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTCAACGAGAAATCGGATGTCTACAGCTATGGCATTGTCCTCCTGGAGCTACTTACAGGCAAAAAGCCAGTCGATAATGAGTGCAATCTCCATCACTTGgtaactatttttccattcgcttgctactgtttatttgaaaacttgttcctttccttcaccatatactcttgcatttgaggttcaataagtgcacaatcat...

Basic information

species Oryza sativa
transcript LOC_Os02g53720.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g53720.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G463904_T03 (Zea mays), 5'ss of exon 26
CCTCAACGAGAAATCGGATGTCTACAGCTATGGCATTGTCCTCCTGGAGCTACTTACAGGCAAAAAGCCAGTCGATAATGAGTGCAATCTCCATCACTTGgtaactatttt-tccattcgcttgctactgtttatttgaaaacttgttcctttccttcaccatatactctt-gcatttgaggttcaataagtgcacaatcat
  ||||||||||||||||||| |||||||| ||||||||| | |||||||| ||||| ||||||||||| |||||  | |||||||| || || |||||||||||||||   || ||    || ||       | | |    | |     |||| ||| | |    | |||  ||| |  |        | |  ||      
GATCAACGAGAAATCGGATGTGTACAGCTACGGCATTGTCTTGCTGGAGCTGCTTACCGGCAAAAAGCCTGTCGACGACGAGTGCAACCTTCACCACTTGgtaactattccatctatctttttacttgctcgcaatagttttccttgatttttctttccctagtcccacttcacatatacgacctttagattttacgcct--

upper sequence: LOC_Os02g53720.1 (Oryza sativa), 5'ss of exon 5
lower sequence: EFJ21557 (Selaginella moellendorffii), 5'ss of exon 23
CCTCAACGAGAAATCGGATGTCTACAGCTATGGCATTGTCCTCCTGGAGCTACTTACAGGCAAAAAGCCAGTCGATAATGAGTGCAATCTCCATCACTTGgtaactatttttccattcgcttgctactgtttatttgaaaacttgttcctttccttcaccatatactcttgcatttgaggttcaataagtgcacaatcat
 || |||||||| ||||| || || ||||||||||| ||||||||||||||  | || ||   |||  | || ||  | ||  | ||  | ||||| | ||||  |  | ||    ||||| |  |||   |  ||     |||||  |                                                   
GCTAAACGAGAAGTCGGACGTGTATAGCTATGGCATCGTCCTCCTGGAGCTCATCACCGGATTAAAAGCCGTGGACGACGAAAGGAACTTGCATCAATGGgtacgtgatcttttcctcgctaga-actacgttcttactttcttgtgtccag------------------------------------------------

upper sequence: LOC_Os02g53720.1 (Oryza sativa), 5'ss of exon 5
lower sequence: EFJ23934 (Selaginella moellendorffii), 5'ss of exon 23
CCTCAACGAGAAATCGGATGTCTACAGCTATGGCATTGTCCTCCTGGAGCTACTTACAGGCAAAAAGCCAGTCGATAATGAGTGCAATCTCCATCACTTGgtaactatttttccattcgcttgctactgtttatttgaaaacttgttcctttccttcaccatatactcttgcatttgaggttcaataagtgcacaatcat
 || |||||||| ||||| || || ||||||||||| ||||||||||||||  | || ||   |||  | || ||  | ||  | ||  | ||||| | ||||  |  | ||    ||||| |  |||   |  ||     |||||  |                                                   
GCTAAACGAGAAGTCGGACGTGTATAGCTATGGCATCGTCCTCCTGGAGCTCATCACCGGATTAAAAGCCGTAGACGACGAAAGGAACTTGCATCAATGGgtacgtgatcttttcctcgctaga-actacgttcttactttcttgtgtccag------------------------------------------------

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|58653846|gb|CK042526.1|CK042526
EST:     GATAACTGAGTGCAATCTCCATCACTTG                         ATCCTATCCAAAGCCGCAGACAACACGGTCATGGAGATGGTCGACCCAGAC
genomic: GATAA-TGAGTGCAATCTCCATCACTTGgtaactattt ... ttctctgcagATCCTATCCAAAGCCGCAGACAACACGGTCATGGAGATGGTCGACCCAGAC
EST: gi|58656929|gb|CK045609.1|CK045609
EST:     GATAATGAGTGCAATCTCCATCACTTG                         ATCCTATCCAAGAGCCGCAGACAACACGGTCATGGAGATGGTCGACCCAGA
genomic: GATAATGAGTGCAATCTCCATCACTTGgtaactattt ... ttctctgcagATCCTATCCAA-AGCCGCAGACAACACGGTCATGGAGATGGTCGACCCAGA