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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgcatttccttgcttcttctgttcatcttactgggtctagagttgtttaaataacatgcacgttatttgttgtgccttatgtatgtactgcacatcgtctcatgatgttgttgtgtttgtagCTGGGGGTGTCATTGCATCAATCCTTGTAGTTGTCTGCCTATGCTGGGTTGGGGTTGTTGACCATGTTGGTTTTGAGAACAAAGGGACTGCACTGAATCT

Basic information

species Oryza sativa
transcript LOC_Os02g01100.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g01100.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G105192_T04 (Zea mays), 3'ss of exon 5
gtttgcatttccttgcttctt--ctgttcatcttactgggtctag--agtt-gtttaaataacatgcacgttatttgt---tgtgccttatgtatgtactgcacatcgtctcatgatgttgttgtgtttgtagCTGGGGGTGTCATTGCATCAATCCTTGTAGTTGTCTGCCTATGCTGGGTTGGGGTTGTTGACCATGTTGGTTTTGAGAACAAAGGGACTGCACTGAATCT
|| | |||||   || | |||  |  ||    | ||   |  | |  |||  || |  ||    ||||  |  ||      | | || | |   |||||  | ||| || || | |   |||||||||||||||||| |||||  ||||||||||||||| |||  ||||||||| |||||| || ||||||||  ||||||| |||||||||||||| ||||| ||||| ||
gtctccatttatctgttgctttgcattttggttgacaatgcattgtcagtcagtgtgtattctttgcatttagttcagatgtctaccctcttggtgtaccactcatggtttc-tcactatgttgtgtttgtagCTGGAGGTGTTTTTGCATCAATCCTTGGAGTCATCTGCCTATTCTGGGTAGGAGTTGTTGATAATGTTGGCTTTGAGAACAAAGGAACTGCTCTGAACCT

upper sequence: LOC_Os02g01100.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G134888_T01 (Zea mays), 3'ss of exon 5
gtttgcatttccttgcttcttctgttcatcttactgggt-ctagagttgtttaaataacatgcacgttatttgttgtgccttatgtatgtactgcacatcgtctcatgatgttgttgtgtttgtagCTGGGGGTGTCATTGCATCAATCCTTGTAGTTGTCTGCCTATGCTGGGTTGGGGTTGTTGACCATGTTGGTTTTGAGAACAAAGGGACTGCACTGAATCT
                      | |  || || | || | ||    || ||| ||     || || | |||  | ||     |    | || ||   ||  |  |||  ||||  | ||| |  |||||||||||||||||||||||||||||| ||  ||||||| | || ||||||||||||  |  || | || ||||||||  ||||||||||||||||   
---------------------gtctcaattttgccggcttctctttttcttttaactctttgtacctgattcat-gtattgcacac-tatattg---atgctagcat--tgtttgtctgtctccagCTGGGGGTGTCATTGCATCAATCCTTGTGGTCATCTGCCTGTTCTTGGTTGGGGTTGTCAATGATTTCGGCTTTGAGAATGAAGGGACTGCACTGAACGC
















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|88728967|gb|CI752477.1|CI752477
EST:     CATGCCAACCACTTGGCTCCGCGACCTTAGCTGTCTGAGTTATCTTTCAG                         CTGGGGGTGTCATTGCATCAATCCTTGTANTTGTCTGCCTATGCTGGGTTG
genomic: CATGCCAACCACTTGGCTCCGCGACCTTAGCTGTCTGAGTTATCTTTCAGgtttgcattt ... gtgtttgtagCTGGGGGTGTCATTGCATCAATCCTTGTAGTTGTCTGCCTATGCTGGGTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgtgccttatgtatgtactgcacatcgtctcatgatgttgttgtgtttgtagCTGGGGGTGTCATTGCATCAATCCTTGTAGTTGTCTGCCTATGCTGGGTTGGGGTTGTTGACCATGTTGGTTTTGAGAACAAAGGGACTGCACTGAATCT
         ttatgtat  TA-rich tract