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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtccgctgtttataatgagcctcttcgtgataatctctactgtttgccaatgcggaaaatgtgatttggtgttgtgaaaattgtgattcggaggttagTTCCGCAGCGGGCCTATCAGCGTAGCCGAGTACATGGAGGAGGTGCTGACGAACCCGCAGTCAGGGTTCTACATCAACCGCGACGTGTTCGGGACATCCG

Basic information

species Oryza sativa
transcript LOC_Os01g40620.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g40620.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G086052_T03 (Zea mays), 3'ss of exon 2
gtgtccgctgtttataatgagcctcttcgtgataatctctactgtttgccaatgcggaaaatgtgatttggtgttgtgaaaattgtgattcggaggttagTTCCGCAGCGGGCCTATCAGCGTAGCCGAGTACATGGAGGAGGTGCTGACGAACCCGCAGTCAGGGTTCTACATCAACCGCGACGTGTTCGGGACATCCG
           |   |       | |   || ||||| ||  || | ||   |  || |||||| | |||    | |  |  |  |  |   |  ||||||| || || ||||| |||||| |||| || |||||||||||||||||||||||||| |||||||| |||||||||||||| |||||||| |||  ||| |
----------gtgccagcttctgtttctatgttaatcactgttgctcgc--gttggggaaatgttaattgtccatttcgatgtgattgtggtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACGAACCCACAGTCAGGATTCTACATCAACCGTGACGTGTTTGGGGAATCAG
















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|58690997|gb|CK079684.1|CK079684
EST:     AGCCGTCGTCGGATTCCGAGCTAGTGAAGCACCTCAAGAGCATCATAAAG                         TTCCGCAGCGGGCCTATCAGCGTAGCCGAGTACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGATTCCGAGCTAGTGAAGCACCTCAAGAGCATCATAAAGgtgtccgctg ... cggaggttagTTCCGCAGCGGGCCTATCAGCGTAGCCGAGTACATGGAGGAGGTGCTGACG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgccaatgcggaaaatgtgatttggtgttgtgaaaattgtgattcggaggttagTTCCGCAGCGGGCCTATCAGCGTAGCCGAGTACATGGAGGAGGTGCTGACGAACCCGCAGTCAGGGTTCTACATCAACCGCGACGTGTTCGGGACATCCG
                               tgaaaatt  TA-rich tract