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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTTGCTTTTGTGAAAGCTCTTTGCAAGGTCTCAATGACTGAGTTGCAGTCTCCAACGGATCCTCGTATCTTCTGCCTTACAAAAATAGTAGAAATCGCgtaagaatttcctagatccacttgtaaaacctacctttcactagcagatagtagctgtgacccagtacttgtcaactattctaattctgaactaaattcgtgcag

Basic information

species Oryza sativa
transcript LOC_Os06g41780.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g41780.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G092586_T01 (Zea mays), 5'ss of exon 7
TTGTTGCTTTTGTGAAAGCTCTTTGCAAGGTCTCAATGACTGAGTTGCAGTCTCCAACGGATCCTCGTATCTTCTGCCTTACAAAAATAGTAGAAATCGCgtaagaat-ttcctagatcca-cttgtaaaacctacctttcactagcag--atagtagctgtgacccagtacttgtc-aactattctaattctgaactaaattcgtgcag
|||||||||||||||| ||||||||||||||||||||||||||| ||||||||||||| ||||||||||||||||||||||| ||||||||||| || |||||||||  |||||| ||  |  ||  |||| ||    || |||    |  | || |||    ||    |  || |    ||||||| |||| |||||   || ||||||
TTGTTGCTTTTGTGAAGGCTCTTTGCAAGGTCTCAATGACTGAGCTGCAGTCTCCAACAGATCCTCGTATCTTCTGCCTTACTAAAATAGTAGAGATTGCgtaagaagattcctaaatttaatttaaaaaatctgatatttactgatggcaacagcagccacaacttgatgtttctttggctattctcattccgaactttgtttgtgcag

upper sequence: LOC_Os06g41780.2 (Oryza sativa), 5'ss of exon 1
lower sequence: AT4G38200.1 (Arabidopsis thaliana), 5'ss of exon 7
TTGTTGCTTTTGTGAAAGCTCTTTGCAAGGTCTCAATGACTGAGTTGCAGTCTCCAACGGATCCTCGTATCTTCTGCCTTACAAAAATAGTAGAAATCGCgtaagaatttccta----gatccacttgtaaaacctacctttcactagcagatagtagctgtgacccagtacttgtcaactat----tctaattctgaactaaattcgtg-cag---------------------------------------------------
| || || ||||| |||||||| ||||| ||||| ||| | ||  |||||||||| |||||||||||  | ||  ||||||||||| |||| || |||||||||||||||| |     ||| | ||  | | | | || |   |  || |      |  |   |  ||   | | |   |||         ||   ||   |   || ||  ||                                                   
TAGTAGCATTTGTTAAAGCTCTATGCAAAGTCTCTATGTCAGAACTGCAGTCTCCTACGGATCCTCGAGTATTTAGCCTTACAAAATTAGTTGAGATCGCgtaagaatttcttcttttgatactctctttagaac-acatagaatgagaaatggacatattgaatacatctcatcttggctacagaactggatatcgagtgagcatcatgatagtctaataagatgtcaacatatcatttacatatctcttttcttgctgtacag

upper sequence: LOC_Os06g41780.2 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv03s0038g04090.t01 (Vitis vinifera), 5'ss of exon 7
TTGTTGCTTTTGTGAAAGCTCTTTGCAAGGTCTCAATGACTGAGTTGCAGTCTCCAACGGATCCTCGTATCTTCTGCCTTACAAAAATAGTAGAAATCGCgtaagaatttcctagatccacttgtaaaacctacctttcactagcagatagtagctgtgacccagtacttgtcaactattctaattctgaactaaattcgtgcag
| || ||||||||||| ||||||||||| || || ||| | |||||||||||||| |||||||||||| | ||| |||| |||||||| || || || |||||||  | | ||   |   ||| |  |  ||  ||   |    |  ||   |  |   |      | |     | |   || ||    |||||| ||  |    
TAGTAGCTTTTGTGAAGGCTCTTTGCAAAGTTTCCATGTCAGAGTTGCAGTCTCCTACGGATCCTCGTGTATTCAGCCTCACAAAAATTGTTGAGATTGCgtaagcttatgctcctttttctt-tccagtctctctcaaatattctcatcaaatttcaaaattttcattctgtgaatgcactgat---aaactaattttatttt-

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|88695021|gb|CI739059.1|CI739059
EST:     TCTCCAACGGATCCTCGTATCTTCTGCCCTACAAAAATAGTAGAAATCGC                         GCATTACAACGTGAACCGCATACGTTTGGTGTGGTCTCGAATTTGGAAAGT
genomic: TCTCCAACGGATCCTCGTATCTTCTGCCTTACAAAAATAGTAGAAATCGCgtaagaattt ... attcgtgcagGCATTACAACGTGAACCGCATACGTTTGGTGTGGTCTCGAATTTGGAAAGT
EST: gi|86894812|gb|CI310189.1|CI310189
EST:     TCTCCAACGGATCCTCGTATCTTCTGCCTTACAAAAATAGTAGAAATCGC                         GCATTACAACGTGAACCGCATACGTTTGGTGTGGTCTCGAATTTGGAAAGT
genomic: TCTCCAACGGATCCTCGTATCTTCTGCCTTACAAAAATAGTAGAAATCGCgtaagaattt ... attcgtgcagGCATTACAACGTGAACCGCATACGTTTGGTGTGGTCTCGAATTTGGAAAGT