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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgtgcatgcgaattctttctatcggaaggaaaaaaaatgctgattcacaatgttacttaatatattgactatctgtaagctgactctgtttgcaaccagGTTCTTCCACCTCTCTGTGCTGAGTTACGCAACATGGTCATGCAGCCAATGATTTTGCCCATGGTTCTAACAATAGCGGAATCTCAG

Basic information

species Oryza sativa
transcript LOC_Os01g42950.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g42950.3 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G061681_T02 (Zea mays), 3'ss of exon 7
----gtgtgcatgcgaattctttctatcggaaggaaaaaaaatgctgattcacaatgttacttaatatattgactatctgtaagctgactctg--tttgcaaccagGTTCTTCCACCTCTCTGTGCTGAGTTACGCAACATGGTCATGCAGCCAATGATTTTGCCCATGGTTCTAACAATAGCGGAATCTCAG
     ||||| |   ||    || | ||   |||||||| ||    |  | | | |  || || ||  ||||  ||| |  ||||||||||    ||||||||||||||||||| ||||| ||||||||||||||||||||||| |||||||||||||||||||| ||||||||||||||||| |||||||||
ctgtttgtgcttttcaaactgttttgtcc--aggaaaaagaaca--gccttatatt--tatttgatccattggttatttcaaagctgactcacactttgcaaccagGTTCTTCCTCCTCTTTGTGCTGAGTTACGCAACATGGTTATGCAGCCAATGATTTTGCCTATGGTTCTAACAATAGCAGAATCTCAG

upper sequence: LOC_Os01g42950.3 (Oryza sativa), 3'ss of exon 7
lower sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 7
gtgtgcatgcgaattctttctatcggaaggaaaaaaaatgctgattcacaatgttacttaatatattgactatctgtaagctgactctgt-ttgcaaccagGTTCTTCCACCTCTCTGTGCTGAGTTACGCAACATGGTCATGCAGCCAATGATTTTGCCCATGGTTCTAACAATAGCGGAATCTCAG
|| ||  |             ||   || |     || |  || ||    | |  | | ||||  || | |      |   |   | | | || ||   |||| ||||||||||| ||||| ||  | || ||  |||| ||||| ||||||||| | ||||||||||| ||||||||||| ||||||
gtctgtttagtttaatgaatcattcaaatgccttcaattattgcttttggaaggca-tgaatagcttcaatgaagagattttccttttatgtttcatgtagGTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATGATTCTTCCCATGGTTCTCACAATAGCGGAGTCTCAG
















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|29682525|gb|CB678800.1|CB678800
EST:     CATTATCGGATATGTGGAAGGACTTCGATTCCCGAGTTCTTCGGTATAAA                         GTTCTTCCACCTCTCTGTGCTGAGTTACGCAACATGGTCATGCAGCCAATG
genomic: CATTATCGGATATGTGGAAGGACTTCGATTCCCGAGTTCTTCGGTATAAAgtatgagcaa ... ttgcaaccagGTTCTTCCACCTCTCTGTGCTGAGTTACGCAACATGGTCATGCAGCCAATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcacaatgttacttaatatattgactatctgtaagctgactctgtttgcaaccagGTTCTTCCACCTCTCTGTGCTGAGTTACGCAACATGGTCATGCAGCCAATGATTTTGCCCATGGTTCTAACAATAGCGGAATCTCAG
                                       ctctgttt  CT-rich tract
     atgttacttaatatat  TA-rich tract