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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatttctccagcataatctacatatggtgtttagataacctctactttcactgatgtttctttcttttgtgcaaccagGACAAATGATCCTCATGAGGCGATTGATCGAATTGTGAGAG

Basic information

species Oryza sativa
transcript LOC_Os03g03400.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g03400.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM5G812553_T02 (Zea mays), 3'ss of exon 6
gtatattt-------ctccagcataatctacatatggtgt-----ttagataacctctactttcactgatgtttctttc-ttttgtgcaaccagGACAAATGATCCTCATGAGGCGATTGATCGAATTGTGAGAG
||||||||       |||| |    | |||||||||   |     || | |||||| || || |  | |  || ||||  |||  |   ||||||||||||||||| ||||| ||||||||||||||||||||||
gtatatttgtttcctctcctgtgcgagctacatatgacttggttatttgttaacctttatttcctgtaaaattgcttttgtttctttttaccagGACAAATGATCCCCATGACGCGATTGATCGAATTGTGAGAG

upper sequence: LOC_Os03g03400.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM5G812553_T01 (Zea mays), 3'ss of exon 6
gtatattt-------ctccagcataatctacatatggtgt-----ttagataacctctactttcactgatgtttctttc-ttttgtgcaaccagGACAAATGATCCTCATGAGGCGATTGATCGAATTGTGAGAG
||||||||       |||| |    | |||||||||   |     || | |||||| || || |  | |  || ||||  |||  |   ||||||||||||||||| ||||| |||||||||||||||       
gtatatttgtttcctctcctgtgcgagctacatatgacttggttatttgttaacctttatttcctgtaaaattgcttttgtttctttttaccagGACAAATGATCCCCATGACGCGATTGATCGAATT-------
















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|58682220|gb|CK070907.1|CK070907
EST:     CTCATTCCACTTGGAACTGGTTCAGACTTTGCAAGGACATTTGGCTG                         GACAAATGATCCTCATGAGGCGATTGATCGAATTGTGAGAG
genomic: CTCATTCCACTTGGAACTGGTTCAGACTTTGCAAGGACATTTGGCTGgtatatttct ... gtgcaaccagGACAAATGATCCTCATGAGGCGATTGATCGAATTGTGAGAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggtgtttagataacctctactttcactgatgtttctttcttttgtgcaaccagGACAAATGATCCTCATGAGGCGATTGATCGAATTGTGAGAG
                         cactgat  putative branch site (score: 3)
                               tgtttctttcttttgt  CT-rich tract
      tttagataa  TA-rich tract