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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATCTAAATGGAAGGAAACGCCAAATGGACAGCATGTTGATTATGATCAAAGGCCAGACATATTTAGgttaatttttatctgatgactttttttggttatattttttgcaactttcctccatatttatcatctgccttcttttggacag

Basic information

species Oryza sativa
transcript LOC_Os01g56580.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 9
lower sequence: AT3G03940.1 (Arabidopsis thaliana), 5'ss of exon 9
CATCTAAATGGAAGGAAACGCCAAATGGACAGCATGTTGATTATGATCAAAGGCCAGACATATTTAGgt----taatttttatctgatgactttttt--tggttatattttttgcaactttcctccatatttatcatctgccttcttttggacag
|||| | |||||| ||  | |    ||| ||||||||||| |||||||||||||||||  |||||||||    | |||  | | || |  ||||  |  |  |  |  | | |  |  || |   ||| ||| | |     | | |   |     
CATCAAGATGGAAAGATTCACACTCTGGCCAGCATGTTGAATATGATCAAAGGCCAGATGTATTTAGgtattttgattggtgtatgttatctttcctactattgttggtatatatattttgctcacatctttgttacgcttcatatgcag-----

upper sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 9
CATCTAAATGGAAGGAAACGCCAAATGGACAGCATGTTGATTATGATCAAAGGCCAGACATATTTAGgttaatttttatctgatgactttttttggttatattttttgcaactttcctccatatttatcatctgccttcttttggacag
| ||||||||||| || ||  ||  ||| || ||||||||||||||||| ||||| |||||||| |||||  |   | ||||     |  |       | |     |||      | |    || ||| |    |||  |||  | |||
CCTCTAAATGGAAAGACACCACATCTGGTCAACATGTTGATTATGATCAGAGGCCTGACATATTCAGgtttgtggatttctggatgttcataaaaaaaaaaaaaaatgctttgacctttataatatattaatctcctctttt--ggcag
















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|29629024|gb|CB634035.1|CB634035
EST:     ACGCCAAATGGACAGCATGTTGATTATGATCAAAGGCCAGACATATTTAG                         GGGTACAATAAGATATGCT
genomic: ACGCCAAATGGACAGCATGTTGATTATGATCAAAGGCCAGACATATTTAGgttaattttt ... ttttggacagGGGTACAATAAGATATGCT
EST: gi|29623307|gb|CB628318.1|CB628318
EST:     ACGCCAAATGGACAGCATGTTGATTATGATCAAAGGCCAGACATATTTAG                         GGGTACAATAAGATATGCTAGTGTCCATGCCCATTTAGGCCGTACTGGTAG
genomic: ACGCCAAATGGACAGCATGTTGATTATGATCAAAGGCCAGACATATTTAGgttaattttt ... ttttggacagGGGTACAATAAGATATGCTAGTGTCCATGCCCATTTAGGCCGTACTGGTAG