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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTGGTGGAGGGAAGAGCCTCTGCTATCAACTACCTGCTGTACTTCATGATGGAATTACATTGGTTGTTAGTCCTTTGCTTTCCCTTATCCAGGACCAGgtatttaagctttcaagatcgtagttttcactgcattttccaagtcatcaagtagacaaaaggacacccatggacatcacgtatgagagagataggataa...

Basic information

species Oryza sativa
transcript LOC_Os11g48090.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g48090.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G451856_T02 (Zea mays), 5'ss of exon 4
TGCTGGTGGAGGGAAGAGCCTCTGCTATCAACTACCTGCTGTACTTCATGATGGAATTACATTGGTTGTTAGTCCTTTGCTTTCCCTTATCCAGGACCAGgtatttaagctttcaagatcgta-gttttcactgcattttccaagtcatcaagtagacaaaaggacacccatggacatcacgtatgagagagataggataa
 ||||||||||||||||| || || || || || || |||||||||| |||||||||| || ||||||| |||||||| ||||||||||| |||||||||||  ||||  | | || ||  |  | |||| ||  |  | |    ||      | || |||   | | | ||  |                          
AGCTGGTGGAGGGAAGAGTCTATGTTACCAGCTCCCAGCTGTACTTCGTGATGGAATTGCACTGGTTGTCAGTCCTTTACTTTCCCTTATTCAGGACCAGgtggttaaagtgtaaatattttttggtttccctatacatccttgttctgatccttgaaaaatttatatcaatccag-------------------------

upper sequence: LOC_Os11g48090.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA09G34860.1 (Glycine max), 5'ss of exon 3
TGCTGGTGGAGGGAAGAGCCTCTGCTATCAACTACCTGCTGTACTTCATGATGGAATTACATTGGTTGTTAGTCCTTTGCTTTCCCTTATCCAGGACCAGgta---tttaagctttcaagatc----gtagttttcactgcattttccaagtcatcaagtagacaaaaggacacccatggacatcacgtatgagagagataggataa------
||| ||||| || |||||||||||||| || || |||||||| |||| |||||||||| |  | ||||| ||||||||||||||| | || || || |||||    || |   | | || |||      |  |||     || |    || |  |  | |  | ||   |    |        | |       | | |   ||||        
TGCAGGTGGTGGCAAGAGCCTCTGCTACCAGCTTCCTGCTGTTCTTCGTGATGGAATTGCTCTAGTTGTCAGTCCTTTGCTTTCCTTAATTCAAGATCAGgtgcatttcattatgttaaaatccaatacaagtttttggtcaatgaaaaatttcttgaatttaaaatgtgttttctgcctcttttattcccctgggtggggggattgcttcag
















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|58672003|gb|CK060689.1|CK060689
EST:     ATGGAATTACATTGGTTGTTAGTCCTTTGCTTTCCCTTATCCAGGACCAG                         GTCATGGGACTAGCAGCTTTAGGTATACAAGCATACATGCTGGCTTCAACT
genomic: ATGGAATTACATTGGTTGTTAGTCCTTTGCTTTCCCTTATCCAGGACCAGgtatttaagc ... tcaattctagGTCATGGGACTAGCAGCTTTAGGTATACAAGCATACATGCTGGCTTCAACT
EST: gi|58671155|gb|CK059841.1|CK059841
EST:     ATGGAATTACATTGGTTGTTAGTCCTTTGCTTTCCCTTATCCAGGACCAG                         GTCATGGGACTAGCAGCTTTAGGTATACAAGCATACATGCTGGCTTCAACT
genomic: ATGGAATTACATTGGTTGTTAGTCCTTTGCTTTCCCTTATCCAGGACCAGgtatttaagc ... tcaattctagGTCATGGGACTAGCAGCTTTAGGTATACAAGCATACATGCTGGCTTCAACT
EST: gi|29673292|gb|CB669567.1|CB669567
EST:     ATGGAATTACATTGGTTGTTAGTCCTTTGCTTTCCCTTATCCAGGACCAG                         GTCATGGGACTAGCAGCTTTAGGTATACAAGCATACATGCTGGCTTCAACT
genomic: ATGGAATTACATTGGTTGTTAGTCCTTTGCTTTCCCTTATCCAGGACCAGgtatttaagc ... tcaattctagGTCATGGGACTAGCAGCTTTAGGTATACAAGCATACATGCTGGCTTCAACT