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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAACAGCTCATGATGTTCGCACAATGATTATTGGCCGATTACTTGCTGGGATTGGTATTGGCATATCTTCTGCTCTTGTGCCCCTTTACATATCTGAGgttgtgataactgataaattcaaattgttgaaatgattgttcagctactactggctaggttcttgaacatgcccaacaactgagctatttacgcttgcgcctgcag

Basic information

species Oryza sativa
transcript LOC_Os01g04190.4
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g04190.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G098011_T02 (Zea mays), 5'ss of exon 6
TGCAACAGCTCATGATGTTCGCACAATGATTATTGGCCGATTACTTGCTGGGATTGGTATTGGCATATCTTCTGCTCTTGTGCCCCTTTACATATCTGAGgttgtgata-actgataa---attcaaattgttgaaatgattgttcagctactactggctagg----ttcttgaacatgcccaacaactgagctatttac--gcttgcgcctgcag----------------------
 ||||||||||| ||| | ||||| ||||||||||| || || |||||||| ||||||||||| || || ||||| ||||| |||||||||||||||||||||||||||   ||| |    | |    ||||| |||   |  | | | |   |   ||||       |  ||    ||  ||| | ||     ||  |    |   |  || ||                       
CGCAACAGCTCAAGATATCCGCACCATGATTATTGGTCGGTTGCTTGCTGGAATTGGTATTGGGATCTCATCTGCACTTGTACCCCTTTACATATCTGAGgttgtgatacgatgaaacgacagttgctttgttcaaaacctgatgctgttgtgaaatgctacagttacttctgtctttgttcaatagctactgcatgcattgacgaacatctccaacaaatgaacttgtactttgcag

upper sequence: LOC_Os01g04190.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G153704_T01 (Zea mays), 5'ss of exon 10
TGCAACAGCTCATGATGTTCGCACAATGATTATTGGCCGATTACTTGCTGGGATTGGTATTGGCATATCTTCTGCTCTTGTGCCCCTTTACATATCTGAGgttgtgata-actgataa---attcaaattgttgaaa---tgat--tgtt----cagctactactggctaggttcttgaacatgcccaacaactgagctatttacgcttgcgcctgcag
|||||||||||| ||| | ||||||||||||||||||||||| |||||||| |||||||| ||  | || ||||||||||| |||||||||||||||||||||||||||   ||| |    | |    ||||| |||   | ||  ||||     |  |||| ||| ||  |||  ||||||| |||||||| |||  |   |   ||     ||||||
TGCAACAGCTCAAGATATCCGCACAATGATTATTGGCCGATTGCTTGCTGGAATTGGTATCGGGGTCTCATCTGCTCTTGTACCCCTTTACATATCTGAGgttgtgatacgttgacatgacagttgctttgttcaaaacctaatgctgttgtgatatgtacttctgcctgtgttgatgaacatccccaacaaatgaatttcctgtact-----ctgcag

upper sequence: LOC_Os01g04190.2 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 5'ss of exon 6
TGCAACAGCTCATGATGTTCGCACAATGATTATTGGCCGATTACTTGCTGGGATTGGTATTGGCATATCTTCTGCTCTTGTGCCCCTTTACATATCTGAGgttgtgataactgataaattcaaattgttgaaatgattgttcagctactactggctaggttct-tgaacatgcccaacaactgagctatttacgcttgcgcctgcag
||| ||||| ||   ||| |  || ||||| |||||  | ||||||||||| ||||| |||||||| || ||||| |||||||| ||||||||||||||||| || ||          ||||| || |    || ||| ||  |||| |  | | | | || | ||||        | ||||||   |  |    ||       |||
TGCGACAGCACAGAGTGTGCAGACTATGATAATTGGTAGGTTACTTGCTGGCATTGGAATTGGCATCTCATCTGCACTTGTGCCACTTTACATATCTGAGgtagtaatgt--------ttcaatttttcattattattattatgctattttttgttcgtttttatgaatgcctttga-aactgaaacacat---tttaaatggtcag

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|66924477|gb|CX111325.1|CX111325
EST:     GGATTGGTATTGGCATATCTTCTGCTCTTGTGCCCCTTTACATATCTGAG                         ATTTCACCCACTGAAATACGTGGAGCACTTGGTTCTGTTAATCAGCTTTTT
genomic: GGATTGGTATTGGCATATCTTCTGCTCTTGTGCCCCTTTACATATCTGAGgttgtgataa ... gcgcctgcagATTTCACCCACTGAAATACGTGGAGCACTTGGTTCTGTTAATCAGCTTTTT
EST: gi|300215629|gb|HO088255.1|HO088255
EST:     GGATTGGTATTGGCATATCTTCTGCTCTTGTGCCCCTTTACATATCTGAG                         ATTTCACCCACTGAAATACGTGGAGCACTTGGTTCTGTTAATCAGCTTTTT
genomic: GGATTGGTATTGGCATATCTTCTGCTCTTGTGCCCCTTTACATATCTGAGgttgtgataa ... gcgcctgcagATTTCACCCACTGAAATACGTGGAGCACTTGGTTCTGTTAATCAGCTTTTT