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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgtgcacggttttttctctttttttttccctgcgatttttttttgggtggtgagattttgaggttttttttttctgtgctcggtggcggtttctgcagCGAAAATGGCGGACGGCGGGGCCCCGTCGTGGCGCATGTCGCTGCCGCACGTGTGCGTCGCCACGCTCACCTCCTTCCTCTTCGGCTACCACTCCGG

Basic information

species Oryza sativa
transcript LOC_Os02g17500.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g17500.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G412899_T03 (Zea mays), 3'ss of exon 1
gtccgtgcacggttttttctct--ttttttttccctgcgatttttttttgg-gtggtgagattttgaggttttttttttctgtgctcggtggcggtttctgcagCGAA-AATGGCGG--ACGGCGGGGCCCCGTCGTGGCGCATGTCGCTGCCGCACGTGTGCGTCGCCACGCTCACCTCCTTCCTCTTCGGCTACCACTCCGG
|| |||||    | ||| | |   ||  | || ||  || ||  ||| ||| | | |  || | | |  |  ||||    | | |  |   || ||        || |    |||||   ||||| ||  |||||||||||||||||| ||||||| || || ||||||||||||||||| |||||||| || ||         
gttcgtgccgcatgtttcccccggttcctcttaccaccggttaatttatggtgagatttgaatctcatttcattttcccatttccatgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGTCGTTGCCGCATGTCTGTGTCGCCACGCTCACCTCGTTCCTCTTTGGATA---------
















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|88398510|gb|CI595911.1|CI595911
EST:     GCGCGTGCCGTCCAGGGACGCCGCCATGGATCTCGACGTCGAGACGCCAG                         CGAAAATGGCGGACGGCGGGGCCCCGTCGTGGCGCATGTAGCTGCCGCACG
genomic: GCGCGTGCCGTCCAGGGACGCCGCCATGGATCTCGACGTCGAGACGCCAGgtccgtgcac ... gtttctgcagCGAAAATGGCGGACGGCGGGGCCCCGTCGTGGCGCATGTCGCTGCCGCACG
EST: gi|88360230|gb|CI610344.1|CI610344
EST:     GCGCGTGCCGTCCAGGGACGCCGCCATGGATCTCGACGTCGAGACGCCAG                         CGAAAATGGCGGACGGCGGGGCCCGGTCGTGGCGCATGTCGCTGCCGCACG
genomic: GCGCGTGCCGTCCAGGGACGCCGCCATGGATCTCGACGTCGAGACGCCAGgtccgtgcac ... gtttctgcagCGAAAATGGCGGACGGCGGGGCCCCGTCGTGGCGCATGTCGCTGCCGCACG
EST: gi|88364960|gb|CI616379.1|CI616379
EST:     GCGCGTGCCGTCCAGGGACGCCGCCATGGATCTCGACGTCGAGACGCAAG                         CGAAAATGGCGGACGGCGGGGCCCCGTCGTGGCGCATGTCGCTGCCGCACG
genomic: GCGCGTGCCGTCCAGGGACGCCGCCATGGATCTCGACGTCGAGACGCCAGgtccgtgcac ... gtttctgcagCGAAAATGGCGGACGGCGGGGCCCCGTCGTGGCGCATGTCGCTGCCGCACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgggtggtgagattttgaggttttttttttctgtgctcggtggcggtttctgcagCGAAAATGGCGGACGGCGGGGCCCCGTCGTGGCGCATGTCGCTGCCGCACGTGTGCGTCGCCACGCTCACCTCCTTCCTCTTCGGCTACCACTCCGG
                                              tttctgc  CT-rich tract
                    ttttttttttctgt  TA-rich tract