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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTTCCACCTCTCTGTGCTGAGTTACGCAACATGGTCATGCAGCCAATGATTTTGCCCATGGTTCTAACAATAGCGGAATCTCAGgtcatgttccttgtgttttacgaatacctttttcttaaatattttatgaattatattctttgttcaatgatagtaagaacttatctcactgattgttaac...

Basic information

species Oryza sativa
transcript LOC_Os01g42950.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g42950.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G061681_T02 (Zea mays), 5'ss of exon 8
GTTCTTCCACCTCTCTGTGCTGAGTTACGCAACATGGTCATGCAGCCAATGATTTTGCCCATGGTTCTAACAATAGCGGAATCTCAGgtcatgttccttgtgttttacgaatacctttttcttaaatattttatgaattatattctttgttcaatgatagta-agaacttatctcactgattgttaac-
|||||||| ||||| ||||||||||||||||||||||| |||||||||||||||||||| ||||||||||||||||| ||||||||||| || |   | || | | |    || |   ||  |||  | |  ||  | | | |      |  ||  | | ||  |||        | | ||| ||| | 
GTTCTTCCTCCTCTTTGTGCTGAGTTACGCAACATGGTTATGCAGCCAATGATTTTGCCTATGGTTCTAACAATAGCAGAATCTCAGgttatttctgtggtttctcatttgtatccactt--taatgaatgaatagagtttctatgcattcaaagaacattatggaatcccgagtatttattcttagcg

upper sequence: LOC_Os01g42950.2 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv18s0089g00030.t01 (Vitis vinifera), 5'ss of exon 8
GTTCTTCCACCTCTCTGTGCTGAGTTACGCAACATGGTCATGCAGCCAATGATTTTGCCCATGGTTCTAACAATAGCGGAATCTCAGgtc---atgttccttgtgttttacga---atacctttttcttaaatatt-ttatgaattatattctt--tgttcaatgatagtaagaacttatctcactgattgt-taac--
|| ||||||||||| ||||| ||  | || ||  |||| ||||| ||||||||| | ||||||||||| ||||||||||| ||||||||    || || ||||  | | |  |   |||  || |  || |   || ||  | || ||     |  ||| | |||    |||  | | || ||    | | | |     
GTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATGATTCTTCCCATGGTTCTCACAATAGCGGAGTCTCAGgtattaattttgcttgcatgtgataatggataagttgtctttgacctttcttgagcatgattgcactgctgtcctatgtagataaccattgatgtcttaaaatatattgtag
















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|66918018|gb|CX104866.1|CX104866
EST:     TCATGCAGCCAATGATTTTGCCCATGGTTCTAACAATAGCGGAATCTCAG                         GACAAAGGTGATTTTGAGCTTTCAACACTGCCGGCCCTTGTTCCGGTATTT
genomic: TCATGCAGCCAATGATTTTGCCCATGGTTCTAACAATAGCGGAATCTCAGgtcatgttcc ... tctctggcagGACAAAGGTGATTTTGAGCTTTCAACACTGCCGGCCCTTGTTCCGGTATTT
EST: gi|29622819|gb|CB627830.1|CB627830
EST:     TCATGCAGCCAATGATTTTGCCCATGGTTCTAACAATAGCGGAATCTCAG                         GACAAAGGTGATTTTGAGCTTTCAACACTGCCGGCCCTTGTTCCGGTATTT
genomic: TCATGCAGCCAATGATTTTGCCCATGGTTCTAACAATAGCGGAATCTCAGgtcatgttcc ... tctctggcagGACAAAGGTGATTTTGAGCTTTCAACACTGCCGGCCCTTGTTCCGGTATTT