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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGGTGTACTTTTAATGTCACTCTTTGTTTTTTTCACAACCACCATGTCTGTTTCATTTACCCTGAGAGAGACGCAATCCCGCATGCTTAGGTTCACAGgtttgtgcttattgctttacgttgtttcttggcctgctagatgctcaacttgttattatgatattatcttatggtaataaataatattttgttttcttcattgaaaatttcag

Basic information

species Oryza sativa
transcript LOC_Os03g45770.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g45770.2 (Oryza sativa), 5'ss of exon 9
lower sequence: AT1G60995.1 (Arabidopsis thaliana), 5'ss of exon 10
TGTGGTGTACTTTTAATGTCACTCTTTGTTTTTTTCACAACCACCATGTCTGTTTCATTTACCCTGAGAGAGACGCAATCCCGCATGCTTAGGTTCACAGgtttgtgcttattgctttacgttgtttcttggcctgctagatgctcaacttgttattatgatattatcttatggtaataaataatattttgttttcttcattgaaaatttcag
|||||||| ||  | |||||||| ||||| |||||||||||||| |||||||| ||||| ||  || ||||||| ||| | |||||| | | ||| ||||||| |   || ||   || |  |   |  |||  | | |    ||   ||| | |  |    || ||||| || |  |  |||  | ||||||                    
TGTGGTGTCCTAATGATGTCACTTTTTGTGTTTTTCACAACCACAATGTCTGTATCATTCACATTGCGAGAGACACAAACTCGCATGTTGAAGTTTACAGgttagaatttcttctattccaatagcttatggtttccaat---ctttgcttctcaaca----atcatctt-tgtt--tcgatatcactttgttgcag----------------

upper sequence: LOC_Os03g45770.2 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv12s0034g02140.t01 (Vitis vinifera), 5'ss of exon 9
TGTGGTGTACTTTTAATGTCACTCTTTGTTTTTTTCACAACCACCATGTCTGTTTCATTTACCCTGAGAGAGACGCAATCCCGCATGCTTAGGTTCACAGgtttgtgcttattgctttacgttgtttcttggcctgctagatgctcaacttgttattatgatattatcttatggtaataaataatattttgttttcttcattgaaaatttcag
|||||||| ||| | ||||| || |||||||| ||||||||||| ||||| |||||||||||  | |||||||| ||| |||||||||| | ||| |||||||||   ||||| | ||   |   ||   | | ||     || |  |      |  || | ||      ||     |||||| ||||||  |   |  || |   ||     
TGTGGTGTGCTTATGATGTCGCTATTTGTTTTCTTCACAACCACAATGTCGGTTTCATTTACATTAAGAGAGACACAAACCCGCATGCTAAAGTTTACAGgtttgc-tttatttcattt--tcaatttaggacatgtaccgtggtgca---agcaacataaaatgtatgcatc-cgttaaatactatttt--tgagtatatgggtgatg----

upper sequence: LOC_Os03g45770.2 (Oryza sativa), 5'ss of exon 9
lower sequence: PP1S96_202V6.1 (Physcomitrella patens), 5'ss of exon 10
TGTGGTGTACTTTTAATGTCACTCTTTGTTTTTTTCACAACCACCATGTCTGTTTCATTTACCCTGAGAGAGACGCAATCCCGCATGCTTAGGTTCACAGgtttgtgctta---ttgctttacgttgtttcttggcctgctagatgctcaacttgttattatgatattatcttatggtaataaataatattttgttttcttcattgaaaatttcag
|| ||||| ||| | |   | ||||||||||| ||||| || || |||||||| || |||||  |||||||||| ||| | |||||||| | ||| ||||||        |   |||| | ||  |  | | |||     |||||  | |  |  ||    ||   |     | | |       |||    | | | ||   |   |         
TGCGGTGTGCTTATCACAACTCTCTTTGTTTTCTTCACGACTACTATGTCTGTATCCTTTACGTTGAGAGAGACACAAGCTCGCATGCTGAAGTTTACAGgtaaaaatcaaactttgcctcaccattatgcatggttatttagat--ttacttaattgggttggagtctctctctagct-----taagccctgggtatcactacata---------

upper sequence: LOC_Os03g45770.2 (Oryza sativa), 5'ss of exon 9
lower sequence: EFJ29169 (Selaginella moellendorffii), 5'ss of exon 9
TGTGGTGTACTTTTAATGTCACTCTTTGTTTTTTTCACAACCACCATGTCTGTTTCATTTACCCTGAGAGAGACGCAATCCCGCATGCTTAGGTTCACAGgtttgtgcttattgctttacgttgtttcttggcctgctagatgctcaacttgttattatgatattatcttatggtaataaataatattttgttttcttcattgaaaatttcag
|  || || ||  |||||||| | ||||| |||||||| || || ||||||||||| || ||||| ||||| |||||| | || ||||| |  ||||||||| ||    | || ||| |  |||| |  ||   ||||| |   ||   ||       ||| |                                                  
TTCGGGGTGCTGATAATGTCATTATTTGTGTTTTTCACCACAACAATGTCTGTTTCGTTCACCCTCAGAGAAACGCAAGCTCGAATGCTGAAATTCACAGgtctgg---tttttcttgaaattgtgttctg---tgctaaaccttc--tttccctgcttgacag-------------------------------------------------

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|58695202|gb|CK083889.1|CK083889
EST:     TCATTTACCCTGAGAGAGACGCAATCCCGCATGCTTAGGTTCACAG                         TGCAGCTTCAACATCATGCACGCCACCAACTCCCCACATTTCAACTGATAT
genomic: TCATTTACCCTGAGAGAGACGCAATCCCGCATGCTTAGGTTCACAGgtttgtgctt ... aaaatttcagTGCAGCTTCAACATCATGCACGCCACCAACTCCCCACATTTCAACTGATAT